Daily Papers

mRNA-based vaccines have become a major focus in the pharmaceutical industry. The coding sequence as well as the Untranslated Regions (UTRs) of an mRNA can strongly influence translation efficiency, stability, degradation, and other factors that collectively determine a vaccine's effectiveness. However, optimizing mRNA sequences for those properties remains a complex challenge. Existing deep learning models often focus solely on coding region optimization, overlooking the UTRs. We present Helix-mRNA, a structured state-space-based and attention hybrid model to address these challenges. In addition to a first pre-training, a second pre-training stage allows us to specialise the model with high-quality data. We employ single nucleotide tokenization of mRNA sequences with codon separation, ensuring prior biological and structural information from the original mRNA sequence is not lost. Our model, Helix-mRNA, outperforms existing methods in analysing both UTRs and coding region properties. It can process sequences 6x longer than current approaches while using only 10% of the parameters of existing foundation models. Its predictive capabilities extend to all mRNA regions. We open-source the model (https://github.com/helicalAI/helical) and model weights (https://huggingface.co/helical-ai/helix-mRNA).

RNA plays a pivotal role in translating genetic instructions into functional outcomes, underscoring its importance in biological processes and disease mechanisms. Despite the emergence of numerous deep learning approaches for RNA, particularly universal RNA language models, there remains a significant lack of standardized benchmarks to assess the effectiveness of these methods. In this study, we introduce the first comprehensive RNA benchmark BEACON (BEnchmArk for COmprehensive RNA Task and Language Models). First, BEACON comprises 13 distinct tasks derived from extensive previous work covering structural analysis, functional studies, and engineering applications, enabling a comprehensive assessment of the performance of methods on various RNA understanding tasks. Second, we examine a range of models, including traditional approaches like CNNs, as well as advanced RNA foundation models based on language models, offering valuable insights into the task-specific performances of these models. Third, we investigate the vital RNA language model components from the tokenizer and positional encoding aspects. Notably, our findings emphasize the superiority of single nucleotide tokenization and the effectiveness of Attention with Linear Biases (ALiBi) over traditional positional encoding methods. Based on these insights, a simple yet strong baseline called BEACON-B is proposed, which can achieve outstanding performance with limited data and computational resources. The datasets and source code of our benchmark are available at https://github.com/terry-r123/RNABenchmark.

Decoding the linguistic intricacies of the genome is a crucial problem in biology, and pre-trained foundational models such as DNABERT and Nucleotide Transformer have made significant strides in this area. Existing works have largely hinged on k-mer, fixed-length permutations of A, T, C, and G, as the token of the genome language due to its simplicity. However, we argue that the computation and sample inefficiencies introduced by k-mer tokenization are primary obstacles in developing large genome foundational models. We provide conceptual and empirical insights into genome tokenization, building on which we propose to replace k-mer tokenization with Byte Pair Encoding (BPE), a statistics-based data compression algorithm that constructs tokens by iteratively merging the most frequent co-occurring genome segment in the corpus. We demonstrate that BPE not only overcomes the limitations of k-mer tokenization but also benefits from the computational efficiency of non-overlapping tokenization. Based on these insights, we introduce DNABERT-2, a refined genome foundation model that adapts an efficient tokenizer and employs multiple strategies to overcome input length constraints, reduce time and memory expenditure, and enhance model capability. Furthermore, we identify the absence of a comprehensive and standardized benchmark for genome understanding as another significant impediment to fair comparative analysis. In response, we propose the Genome Understanding Evaluation (GUE), a comprehensive multi-species genome classification dataset that amalgamates 28 distinct datasets across 7 tasks, with input lengths ranging from 70 to 1000. Through comprehensive experiments on the GUE benchmark, we demonstrate that DNABERT-2 achieves comparable performance to the state-of-the-art model with 21 times fewer parameters and approximately 56 times less GPU time in pre-training.

Genomic (DNA) sequences encode an enormous amount of information for gene regulation and protein synthesis. Similar to natural language models, researchers have proposed foundation models in genomics to learn generalizable features from unlabeled genome data that can then be fine-tuned for downstream tasks such as identifying regulatory elements. Due to the quadratic scaling of attention, previous Transformer-based genomic models have used 512 to 4k tokens as context (<0.001% of the human genome), significantly limiting the modeling of long-range interactions in DNA. In addition, these methods rely on tokenizers to aggregate meaningful DNA units, losing single nucleotide resolution where subtle genetic variations can completely alter protein function via single nucleotide polymorphisms (SNPs). Recently, Hyena, a large language model based on implicit convolutions was shown to match attention in quality while allowing longer context lengths and lower time complexity. Leveraging Hyenas new long-range capabilities, we present HyenaDNA, a genomic foundation model pretrained on the human reference genome with context lengths of up to 1 million tokens at the single nucleotide-level, an up to 500x increase over previous dense attention-based models. HyenaDNA scales sub-quadratically in sequence length (training up to 160x faster than Transformer), uses single nucleotide tokens, and has full global context at each layer. We explore what longer context enables - including the first use of in-context learning in genomics for simple adaptation to novel tasks without updating pretrained model weights. On fine-tuned benchmarks from the Nucleotide Transformer, HyenaDNA reaches state-of-the-art (SotA) on 12 of 17 datasets using a model with orders of magnitude less parameters and pretraining data. On the GenomicBenchmarks, HyenaDNA surpasses SotA on all 8 datasets on average by +9 accuracy points.

Large Language Models have proven highly successful at modelling a variety of tasks. However, this comes at a steep computational cost that hinders wider industrial uptake. In this pa005 per, we present MWT: a Multi-Word Tokenizer that goes beyond word boundaries by representing frequent multi-word expressions as single tokens. MWTs produce a more compact and efficient tokenization that yields two benefits: (1) Increase in performance due to a greater coverage of input data given a fixed sequence length and budget; (2) Faster and lighter inference due to the ability to reduce the sequence length with negligible drops in performance. Our results show that MWT is more robust across shorter sequence lengths, thus allowing for major speedups via early sequence truncation.

Tokenization is an understudied and often neglected component of modern LLMs. Most published works use a single tokenizer for all experiments, often borrowed from another model, without performing ablations or analysis to optimize tokenization. Moreover, the tokenizer is generally kept unchanged when fine-tuning a base model. In this paper, we show that the size, pre-tokenization regular expression, and training data of a tokenizer can significantly impact the model's generation speed, effective context size, memory usage, and downstream performance. We train specialized Byte-Pair Encoding code tokenizers, and conduct extensive ablations on the impact of tokenizer design on the performance of LLMs for code generation tasks such as HumanEval and MBPP, and provide recommendations for tokenizer hyper-parameters selection and switching the tokenizer in a pre-trained LLM. We perform our experiments on models trained from scratch and from pre-trained models, verifying their applicability to a wide range of use-cases. We find that when fine-tuning on more than 50 billion tokens, we can specialize the tokenizer of a pre-trained LLM to obtain large gains in generation speed and effective context size.

Tokenization is a foundational step in Natural Language Processing (NLP) tasks, bridging raw text and language models. Existing tokenization approaches like Byte-Pair Encoding (BPE) originate from the field of data compression, and it has been suggested that the effectiveness of BPE stems from its ability to condense text into a relatively small number of tokens. We test the hypothesis that fewer tokens lead to better downstream performance by introducing PathPiece, a new tokenizer that segments a document's text into the minimum number of tokens for a given vocabulary. Through extensive experimentation we find this hypothesis not to be the case, casting doubt on the understanding of the reasons for effective tokenization. To examine which other factors play a role, we evaluate design decisions across all three phases of tokenization: pre-tokenization, vocabulary construction, and segmentation, offering new insights into the design of effective tokenizers. Specifically, we illustrate the importance of pre-tokenization and the benefits of using BPE to initialize vocabulary construction. We train 64 language models with varying tokenization, ranging in size from 350M to 2.4B parameters, all of which are made publicly available.

As opposed to general English, many concepts in biomedical terminology have been designed in recent history by biomedical professionals with the goal of being precise and concise. This is often achieved by concatenating meaningful biomedical morphemes to create new semantic units. Nevertheless, most modern biomedical language models (LMs) are pre-trained using standard domain-specific tokenizers derived from large scale biomedical corpus statistics without explicitly leveraging the agglutinating nature of biomedical language. In this work, we first find that standard open-domain and biomedical tokenizers are largely unable to segment biomedical terms into meaningful components. Therefore, we hypothesize that using a tokenizer which segments biomedical terminology more accurately would enable biomedical LMs to improve their performance on downstream biomedical NLP tasks, especially ones which involve biomedical terms directly such as named entity recognition (NER) and entity linking. Surprisingly, we find that pre-training a biomedical LM using a more accurate biomedical tokenizer does not improve the entity representation quality of a language model as measured by several intrinsic and extrinsic measures such as masked language modeling prediction (MLM) accuracy as well as NER and entity linking performance. These quantitative findings, along with a case study which explores entity representation quality more directly, suggest that the biomedical pre-training process is quite robust to instances of sub-optimal tokenization.

Tokenization is a fundamental step in natural language processing, breaking text into units that computational models can process. While learned subword tokenizers have become the de-facto standard, they present challenges such as large vocabularies, limited adaptability to new domains or languages, and sensitivity to spelling errors and variations. To overcome these limitations, we investigate a hierarchical architecture for autoregressive language modelling that combines character-level and word-level processing. It employs a lightweight character-level encoder to convert character sequences into word embeddings, which are then processed by a word-level backbone model and decoded back into characters via a compact character-level decoder. This method retains the sequence compression benefits of word-level tokenization without relying on a rigid, predefined vocabulary. We demonstrate, at scales up to 7 billion parameters, that hierarchical transformers match the downstream task performance of subword-tokenizer-based models while exhibiting significantly greater robustness to input perturbations. Additionally, during continued pretraining on an out-of-domain language, our model trains almost twice as fast, achieves superior performance on the target language, and retains more of its previously learned knowledge. Hierarchical transformers pave the way for NLP systems that are more robust, flexible, and generalizable across languages and domains.

In recent years, language models have become increasingly larger and more complex. However, the input representations for these models continue to rely on simple and greedy subword tokenization methods. In this paper, we propose a novel tokenization method that factorizes subwords onto discrete triplets using a VQ-VAE model. The effectiveness of the proposed tokenization method, referred to as the Factorizer, is evaluated on language modeling and morpho-syntactic tasks for 7 diverse languages. Results indicate that this method is more appropriate and robust for morphological tasks than the commonly used byte-pair encoding (BPE) tokenization algorithm.

Subword tokenization is the de facto standard for tokenization in neural language models and machine translation systems. Three advantages are frequently cited in favor of subwords: shorter encoding of frequent tokens, compositionality of subwords, and ability to deal with unknown words. As their relative importance is not entirely clear yet, we propose a tokenization approach that enables us to separate frequency (the first advantage) from compositionality. The approach uses Huffman coding to tokenize words, by order of frequency, using a fixed amount of symbols. Experiments with CS-DE, EN-FR and EN-DE NMT show that frequency alone accounts for 90%-95% of the scores reached by BPE, hence compositionality has less importance than previously thought.

Language models typically tokenize text into subwords, using a deterministic, hand-engineered heuristic of combining characters into longer surface-level strings such as 'ing' or whole words. Recent literature has repeatedly shown the limitations of such a tokenization strategy, particularly for documents not written in English and for representing numbers. On the other extreme, byte/character-level language models are much less restricted but suffer from increased sequence description lengths and a subsequent quadratic expansion in self-attention computation. Recent attempts to compress and limit these context lengths with fixed size convolutions is helpful but completely ignores the word boundary. This paper considers an alternative 'learn your tokens' scheme which utilizes the word boundary to pool bytes/characters into word representations, which are fed to the primary language model, before again decoding individual characters/bytes per word in parallel. We find that our moderately expressive and moderately fast end-to-end tokenizer outperform by over 300% both subwords and byte/character models over the intrinsic language modeling metric of next-word prediction across datasets. It particularly outshines on rare words, outperforming by a factor of 30! We extensively study the language modeling setup for all three categories of tokenizers and theoretically analyze how our end-to-end models can also be a strong trade-off in efficiency and robustness.

Subword tokenization schemes are the dominant technique used in current NLP models. However, such schemes can be rigid and tokenizers built on one corpus do not adapt well to other parallel corpora. It has also been observed that in multilingual corpora, subword tokenization schemes over-segment low-resource languages leading to a drop in translation performance. A simple alternative to subword tokenizers is byte-based methods i.e. tokenization into byte sequences using encoding schemes such as UTF-8. Byte tokens often represent inputs at a sub-character granularity i.e. one character can be represented by a sequence of multiple byte tokens. This results in byte sequences that are significantly longer than character sequences. Enforcing aggregation of local information in the lower layers can guide the model to build higher-level semantic information. We propose a Local Byte Fusion (LOBEF) method for byte-based machine translation -- utilizing byte n-gram and word boundaries -- to aggregate local semantic information. Extensive experiments on multilingual translation, zero-shot cross-lingual transfer, and domain adaptation reveal a consistent improvement over traditional byte-based models and even over subword techniques. Further analysis also indicates that our byte-based models are parameter-efficient and can be trained faster than subword models.

Character-level language models obviate the need for separately trained tokenizers, but efficiency suffers from longer sequence lengths. Learning to combine character representations into tokens has made training these models more efficient, but they still require decoding characters individually. We propose Toucan, an augmentation to character-level models to make them "token-aware". Comparing our method to prior work, we demonstrate significant speed-ups in character generation without a loss in language modeling performance. We then explore differences between our learned dynamic tokenization of character sequences with popular fixed vocabulary solutions such as Byte-Pair Encoding and WordPiece, finding our approach leads to a greater amount of longer sequences tokenized as single items. Our project and code are available at https://nlp.jhu.edu/nuggets/.

Large Language Models (LLMs) based on transformer architectures have revolutionized a variety of domains, with tokenization playing a pivotal role in their pre-processing and fine-tuning stages. In multilingual models, particularly those tailored for Indic languages, effective tokenization is crucial for optimizing performance. This paper presents a comprehensive evaluation of tokenizers used by 12 LLMs across all 22 official languages of India, with a focus on comparing the efficiency of their tokenization processes. We employed the Normalized Sequence Length (NSL) as a key metric in our analysis. Our findings reveal that the SUTRA tokenizer outperforms all other models, including several Indic-specific models, excelling in 14 languages. Notable insights include the SUTRA tokenizer's superior handling of Indic languages, GPT-4o's advancement over its predecessor GPT-4 in processing Indian languages, and the limited performance of Project Indus in certain languages. This study underscores the critical importance of developing targeted tokenization strategies for multilingual and Indic-centric models, laying the groundwork for future improvements in tokenizer design to enhance linguistic coverage and model efficiency.

This study introduces a novel knowledge enhanced tokenisation mechanism, K-Tokeniser, for clinical text processing. Technically, at initialisation stage, K-Tokeniser populates global representations of tokens based on semantic types of domain concepts (such as drugs or diseases) from either a domain ontology like Unified Medical Language System or the training data of the task related corpus. At training or inference stage, sentence level localised context will be utilised for choosing the optimal global token representation to realise the semantic-based tokenisation. To avoid pretraining using the new tokeniser, an embedding initialisation approach is proposed to generate representations for new tokens. Using three transformer-based language models, a comprehensive set of experiments are conducted on four real-world datasets for evaluating K-Tokeniser in a wide range of clinical text analytics tasks including clinical concept and relation extraction, automated clinical coding, clinical phenotype identification, and clinical research article classification. Overall, our models demonstrate consistent improvements over their counterparts in all tasks. In particular, substantial improvements are observed in the automated clinical coding task with 13\% increase on Micro F_1 score. Furthermore, K-Tokeniser also shows significant capacities in facilitating quicker converge of language models. Specifically, using K-Tokeniser, the language models would only require 50\% of the training data to achieve the best performance of the baseline tokeniser using all training data in the concept extraction task and less than 20\% of the data for the automated coding task. It is worth mentioning that all these improvements require no pre-training process, making the approach generalisable.

In this paper, we present a simple and efficient GEC sequence tagger using a Transformer encoder. Our system is pre-trained on synthetic data and then fine-tuned in two stages: first on errorful corpora, and second on a combination of errorful and error-free parallel corpora. We design custom token-level transformations to map input tokens to target corrections. Our best single-model/ensemble GEC tagger achieves an F_{0.5} of 65.3/66.5 on CoNLL-2014 (test) and F_{0.5} of 72.4/73.6 on BEA-2019 (test). Its inference speed is up to 10 times as fast as a Transformer-based seq2seq GEC system. The code and trained models are publicly available.

Tokenization is an important text preprocessing step to prepare input tokens for deep language models. WordPiece and BPE are de facto methods employed by important models, such as BERT and GPT. However, the impact of tokenization can be different for morphologically rich languages, such as Turkic languages, where many words can be generated by adding prefixes and suffixes. We compare five tokenizers at different granularity levels, i.e. their outputs vary from smallest pieces of characters to the surface form of words, including a Morphological-level tokenizer. We train these tokenizers and pretrain medium-sized language models using RoBERTa pretraining procedure on the Turkish split of the OSCAR corpus. We then fine-tune our models on six downstream tasks. Our experiments, supported by statistical tests, reveal that Morphological-level tokenizer has challenging performance with de facto tokenizers. Furthermore, we find that increasing the vocabulary size improves the performance of Morphological and Word-level tokenizers more than that of de facto tokenizers. The ratio of the number of vocabulary parameters to the total number of model parameters can be empirically chosen as 20% for de facto tokenizers and 40% for other tokenizers to obtain a reasonable trade-off between model size and performance.

Generative models, widely utilized in various applications, can often struggle with prompts corresponding to partial tokens. This struggle stems from tokenization, where partial tokens fall out of distribution during inference, leading to incorrect or nonsensical outputs. This paper examines a technique to alleviate the tokenization artifact on text completion in generative models, maintaining performance even in regular non-subword cases. The method, termed token alignment, involves backtracking to the last complete tokens and ensuring the model's generation aligns with the prompt. This approach showcases marked improvement across many partial token scenarios, including nuanced cases like space-prefix and partial indentation, with only a minor time increase. The technique and analysis detailed in this paper contribute to the continuous advancement of generative models in handling partial inputs, bearing relevance for applications like code completion and text autocompletion.

Models that rely on subword tokenization have significant drawbacks, such as sensitivity to character-level noise like spelling errors and inconsistent compression rates across different languages and scripts. While character- or byte-level models like ByT5 attempt to address these concerns, they have not gained widespread adoption -- processing raw byte streams without tokenization results in significantly longer sequence lengths, making training and inference inefficient. This work introduces MrT5 (MergeT5), a more efficient variant of ByT5 that integrates a token deletion mechanism in its encoder to dynamically shorten the input sequence length. After processing through a fixed number of encoder layers, a learnt delete gate determines which tokens are to be removed and which are to be retained for subsequent layers. MrT5 effectively ``merges'' critical information from deleted tokens into a more compact sequence, leveraging contextual information from the remaining tokens. In continued pre-training experiments, we find that MrT5 can achieve significant gains in inference runtime with minimal effect on performance. When trained on English text, MrT5 demonstrates the capability to transfer its deletion feature zero-shot across several languages, with significant additional improvements following multilingual training. Furthermore, MrT5 shows comparable accuracy to ByT5 on downstream evaluations such as XNLI and character-level tasks while reducing sequence lengths by up to 80%. Our approach presents a solution to the practical limitations of existing byte-level models.

Byte Pair Encoding (BPE) serves as a foundation method for text tokenization in the Natural Language Processing (NLP) field. Despite its wide adoption, the original BPE algorithm harbors an inherent flaw: it inadvertently introduces a frequency imbalance for tokens in the text corpus. Since BPE iteratively merges the most frequent token pair in the text corpus while keeping all tokens that have been merged in the vocabulary, it unavoidably holds tokens that primarily represent subwords of complete words and appear infrequently on their own in the text corpus. We term such tokens as Scaffold Tokens. Due to their infrequent appearance in the text corpus, Scaffold Tokens pose a learning imbalance issue for language models. To address that issue, we propose Scaffold-BPE, which incorporates a dynamic scaffold token removal mechanism by parameter-free, computation-light, and easy-to-implement modifications to the original BPE. This novel approach ensures the exclusion of low-frequency Scaffold Tokens from the token representations for the given texts, thereby mitigating the issue of frequency imbalance and facilitating model training. On extensive experiments across language modeling tasks and machine translation tasks, Scaffold-BPE consistently outperforms the original BPE, well demonstrating its effectiveness and superiority.

Language models (LMs) are bound to their tokenizer, which maps raw text to a sequence of vocabulary items (tokens). This restricts their flexibility: for example, LMs trained primarily on English may still perform well in other natural and programming languages, but have vastly decreased efficiency due to their English-centric tokenizer. To mitigate this, we should be able to swap the original LM tokenizer with an arbitrary one, on the fly, without degrading performance. Hence, in this work we define a new problem: Zero-Shot Tokenizer Transfer (ZeTT). The challenge at the core of ZeTT is finding embeddings for the tokens in the vocabulary of the new tokenizer. Since prior heuristics for initializing embeddings often perform at chance level in a ZeTT setting, we propose a new solution: we train a hypernetwork taking a tokenizer as input and predicting the corresponding embeddings. We empirically demonstrate that the hypernetwork generalizes to new tokenizers both with encoder (e.g., XLM-R) and decoder LLMs (e.g., Mistral-7B). Our method comes close to the original models' performance in cross-lingual and coding tasks while markedly reducing the length of the tokenized sequence. We also find that the remaining gap can be quickly closed by continued training on less than 1B tokens. Finally, we show that a ZeTT hypernetwork trained for a base (L)LM can also be applied to fine-tuned variants without extra training. Overall, our results make substantial strides toward detaching LMs from their tokenizer.

What are the units of text that we want to model? From bytes to multi-word expressions, text can be analyzed and generated at many granularities. Until recently, most natural language processing (NLP) models operated over words, treating those as discrete and atomic tokens, but starting with byte-pair encoding (BPE), subword-based approaches have become dominant in many areas, enabling small vocabularies while still allowing for fast inference. Is the end of the road character-level model or byte-level processing? In this survey, we connect several lines of work from the pre-neural and neural era, by showing how hybrid approaches of words and characters as well as subword-based approaches based on learned segmentation have been proposed and evaluated. We conclude that there is and likely will never be a silver bullet singular solution for all applications and that thinking seriously about tokenization remains important for many applications.

The genome sequence contains the blueprint for governing cellular processes. While the availability of genomes has vastly increased over the last decades, experimental annotation of the various functional, non-coding and regulatory elements encoded in the DNA sequence remains both expensive and challenging. This has sparked interest in unsupervised language modeling of genomic DNA, a paradigm that has seen great success for protein sequence data. Although various DNA language models have been proposed, evaluation tasks often differ between individual works, and might not fully recapitulate the fundamental challenges of genome annotation, including the length, scale and sparsity of the data. In this study, we introduce BEND, a Benchmark for DNA language models, featuring a collection of realistic and biologically meaningful downstream tasks defined on the human genome. We find that embeddings from current DNA LMs can approach performance of expert methods on some tasks, but only capture limited information about long-range features. BEND is available at https://github.com/frederikkemarin/BEND.

We pretrain METAGENE-1, a 7-billion-parameter autoregressive transformer model, which we refer to as a metagenomic foundation model, on a novel corpus of diverse metagenomic DNA and RNA sequences comprising over 1.5 trillion base pairs. This dataset is sourced from a large collection of human wastewater samples, processed and sequenced using deep metagenomic (next-generation) sequencing methods. Unlike genomic models that focus on individual genomes or curated sets of specific species, the aim of METAGENE-1 is to capture the full distribution of genomic information present within this wastewater, to aid in tasks relevant to pandemic monitoring and pathogen detection. We carry out byte-pair encoding (BPE) tokenization on our dataset, tailored for metagenomic sequences, and then pretrain our model. In this paper, we first detail the pretraining dataset, tokenization strategy, and model architecture, highlighting the considerations and design choices that enable the effective modeling of metagenomic data. We then show results of pretraining this model on our metagenomic dataset, providing details about our losses, system metrics, and training stability over the course of pretraining. Finally, we demonstrate the performance of METAGENE-1, which achieves state-of-the-art results on a set of genomic benchmarks and new evaluations focused on human-pathogen detection and genomic sequence embedding, showcasing its potential for public health applications in pandemic monitoring, biosurveillance, and early detection of emerging health threats.

Building effective neural machine translation (NMT) models for very low-resourced and morphologically rich African indigenous languages is an open challenge. Besides the issue of finding available resources for them, a lot of work is put into preprocessing and tokenization. Recent studies have shown that standard tokenization methods do not always adequately deal with the grammatical, diacritical, and tonal properties of some African languages. That, coupled with the extremely low availability of training samples, hinders the production of reliable NMT models. In this paper, using Fon language as a case study, we revisit standard tokenization methods and introduce Word-Expressions-Based (WEB) tokenization, a human-involved super-words tokenization strategy to create a better representative vocabulary for training. Furthermore, we compare our tokenization strategy to others on the Fon-French and French-Fon translation tasks.

During times of increasing antibiotic resistance and the spread of infectious diseases like COVID-19, it is important to classify genes related to antibiotic resistance. As natural language processing has advanced with transformer-based language models, many language models that learn characteristics of nucleotide sequences have also emerged. These models show good performance in classifying various features of nucleotide sequences. When classifying nucleotide sequences, not only the sequence itself, but also various background knowledge is utilized. In this study, we use not only a nucleotide sequence-based language model but also a text language model based on PubMed articles to reflect more biological background knowledge in the model. We propose a method to fine-tune the nucleotide sequence language model and the text language model based on various databases of antibiotic resistance genes. We also propose an LLM-based augmentation technique to supplement the data and an ensemble method to effectively combine the two models. We also propose a benchmark for evaluating the model. Our method achieved better performance than the nucleotide sequence language model in the drug resistance class prediction.

Although DNA foundation models have advanced the understanding of genomes, they still face significant challenges in the limited scale and diversity of genomic data. This limitation starkly contrasts with the success of natural language foundation models, which thrive on substantially larger scales. Furthermore, genome understanding involves numerous downstream genome annotation tasks with inherent data heterogeneity, thereby necessitating more efficient and robust fine-tuning methods tailored for genomics. Here, we present Lingo: Language prefix fIne-tuning for GenOmes. Unlike DNA foundation models, Lingo strategically leverages natural language foundation models' contextual cues, recalibrating their linguistic knowledge to genomic sequences. Lingo further accommodates numerous, heterogeneous downstream fine-tune tasks by an adaptive rank sampling method that prunes and stochastically reintroduces pruned singular vectors within small computational budgets. Adaptive rank sampling outperformed existing fine-tuning methods on all benchmarked 14 genome understanding tasks, while requiring fewer than 2\% of trainable parameters as genomic-specific adapters. Impressively, applying these adapters on natural language foundation models matched or even exceeded the performance of DNA foundation models. Lingo presents a new paradigm of efficient and scalable genome understanding via genomic-specific adapters on language models.

Autoregressive next-token prediction is a standard pretraining method for large-scale language models, but its application to vision tasks is hindered by the non-sequential nature of image data, leading to cumulative errors. Most vision models employ masked autoencoder (MAE) based pretraining, which faces scalability issues. To address these challenges, we introduce TokenUnify, a novel pretraining method that integrates random token prediction, next-token prediction, and next-all token prediction. We provide theoretical evidence demonstrating that TokenUnify mitigates cumulative errors in visual autoregression. Cooperated with TokenUnify, we have assembled a large-scale electron microscopy (EM) image dataset with ultra-high resolution, ideal for creating spatially correlated long sequences. This dataset includes over 120 million annotated voxels, making it the largest neuron segmentation dataset to date and providing a unified benchmark for experimental validation. Leveraging the Mamba network inherently suited for long-sequence modeling on this dataset, TokenUnify not only reduces the computational complexity but also leads to a significant 45\% improvement in segmentation performance on downstream EM neuron segmentation tasks compared to existing methods. Furthermore, TokenUnify demonstrates superior scalability over MAE and traditional autoregressive methods, effectively bridging the gap between pretraining strategies for language and vision models. Code is available at https://github.com/ydchen0806/TokenUnify.

Current language models (LMs) use a fixed, static subword tokenizer. This choice, often taken for granted, typically results in degraded efficiency and capabilities in languages other than English, and makes it challenging to apply LMs to new domains or languages. To address these issues, we propose retrofitting LMs with dynamic tokenization: a way to dynamically decide on token boundaries based on the input text. For encoder-style models, we introduce a subword-merging algorithm inspired by byte-pair encoding (BPE), but at a batch level. We merge frequent subword sequences in a batch, then apply a pretrained embedding-prediction hypernetwork to compute the token embeddings on-the-fly. When applied with word-level boundaries, this on average reduces token sequence lengths by >20% across 14 languages on XNLI with XLM-R while degrading its task performance by less than 2%. For decoder-style models, we apply dynamic tokenization in two ways: 1) for prefilling, maintaining performance of Mistral-7B almost completely with up to 40% sequence reduction - relative to the word-level; and 2) via an approximate nearest neighbor index, achieving fast generation with a one million token vocabulary, demonstrating scalability to even larger, dynamic vocabularies. Overall, our findings show that dynamic tokenization substantially improves inference speed and promotes fairness across languages, making a leap towards overcoming the limitations of static tokenization and enabling more equitable and adaptable LMs.

State-of-the-art language models are autoregressive and operate on subword units known as tokens. Specifically, one must encode the conditioning string into a list of tokens before passing to the language models for next-token prediction. We show that popular encoding schemes, such as maximum prefix encoding (MPE) and byte-pair-encoding (BPE), induce a sampling bias that cannot be mitigated with more training or data. To counter this universal problem, for each encoding scheme above, we propose a novel algorithm to obtain unbiased estimates from any language model trained on tokenized data. Our methods do not require finetuning the model, and the complexity, defined as the number of model runs, scales linearly with the sequence length in the case of MPE. As a result, we show that one can simulate token-free behavior from a tokenized language model. We empirically verify the correctness of our method through a Markov-chain setup, where it accurately recovers the transition probabilities, as opposed to the conventional method of directly prompting tokens into the language model.

When used with deep learning, the symbolic music modality is often coupled with language model architectures. To do so, the music needs to be tokenized, i.e. converted into a sequence of discrete tokens. This can be achieved by different approaches, as music can be composed of simultaneous tracks, of simultaneous notes with several attributes. Until now, the proposed tokenizations rely on small vocabularies of tokens describing the note attributes and time events, resulting in fairly long token sequences, and a sub-optimal use of the embedding space of language models. Recent research has put efforts on reducing the overall sequence length by merging embeddings or combining tokens. In this paper, we show that Byte Pair Encoding, a compression technique widely used for natural language, significantly decreases the sequence length while increasing the vocabulary size. By doing so, we leverage the embedding capabilities of such models with more expressive tokens, resulting in both better results and faster inference in generation and classification tasks. The source code is shared on Github, along with a companion website. Finally, BPE is directly implemented in MidiTok, allowing the reader to easily benefit from this method.

Tokenization is associated with many poorly understood shortcomings in language models (LMs), yet remains an important component for long sequence scaling purposes. This work studies how tokenization impacts model performance by analyzing and comparing the stochastic behavior of tokenized models with their byte-level, or token-free, counterparts. We discover that, even when the two models are statistically equivalent, their predictive distributions over the next byte can be substantially different, a phenomenon we term as "tokenization bias''. To fully characterize this phenomenon, we introduce the Byte-Token Representation Lemma, a framework that establishes a mapping between the learned token distribution and its equivalent byte-level distribution. From this result, we develop a next-byte sampling algorithm that eliminates tokenization bias without requiring further training or optimization. In other words, this enables zero-shot conversion of tokenized LMs into statistically equivalent token-free ones. We demonstrate its broad applicability with two use cases: fill-in-the-middle (FIM) tasks and model ensembles. In FIM tasks where input prompts may terminate mid-token, leading to out-of-distribution tokenization, our method mitigates performance degradation and achieves an approximately 18% improvement in FIM coding benchmarks, consistently outperforming the standard token healing fix. For model ensembles where each model employs a distinct vocabulary, our approach enables seamless integration, resulting in improved performance (up to 3.7%) over individual models across various standard baselines in reasoning, knowledge, and coding.

While subword tokenizers such as BPE and WordPiece are typically used to build vocabularies for NLP models, the method of decoding text into a sequence of tokens from these vocabularies is often left unspecified, or ill-suited to the method in which they were constructed. We provide a controlled analysis of seven tokenizer inference methods across four different algorithms and three vocabulary sizes, performed on a novel intrinsic evaluation suite we curated for English, combining measures rooted in morphology, cognition, and information theory. We show that for the most commonly used tokenizers, greedy inference performs surprisingly well; and that SaGe, a recently-introduced contextually-informed tokenizer, outperforms all others on morphological alignment.

This paper describes a system designed to distinguish between AI-generated and human-written scientific excerpts in the DAGPap24 competition hosted within the Fourth Workshop on Scientific Document Processing. In this competition the task is to find artificially generated token-level text fragments in documents of a scientific domain. Our work focuses on the use of a multi-task learning architecture with two heads. The application of this approach is justified by the specificity of the task, where class spans are continuous over several hundred characters. We considered different encoder variations to obtain a state vector for each token in the sequence, as well as a variation in splitting fragments into tokens to further feed into the input of a transform-based encoder. This approach allows us to achieve a 9% quality improvement relative to the baseline solution score on the development set (from 0.86 to 0.95) using the average macro F1-score, as well as a score of 0.96 on a closed test part of the dataset from the competition.

Advances in natural language processing and large language models have sparked growing interest in modeling DNA, often referred to as the "language of life". However, DNA modeling poses unique challenges. First, it requires the ability to process ultra-long DNA sequences while preserving single-nucleotide resolution, as individual nucleotides play a critical role in DNA function. Second, success in this domain requires excelling at both generative and understanding tasks: generative tasks hold potential for therapeutic and industrial applications, while understanding tasks provide crucial insights into biological mechanisms and diseases. To address these challenges, we propose HybriDNA, a decoder-only DNA language model that incorporates a hybrid Transformer-Mamba2 architecture, seamlessly integrating the strengths of attention mechanisms with selective state-space models. This hybrid design enables HybriDNA to efficiently process DNA sequences up to 131kb in length with single-nucleotide resolution. HybriDNA achieves state-of-the-art performance across 33 DNA understanding datasets curated from the BEND, GUE, and LRB benchmarks, and demonstrates exceptional capability in generating synthetic cis-regulatory elements (CREs) with desired properties. Furthermore, we show that HybriDNA adheres to expected scaling laws, with performance improving consistently as the model scales from 300M to 3B and 7B parameters. These findings underscore HybriDNA's versatility and its potential to advance DNA research and applications, paving the way for innovations in understanding and engineering the "language of life".

Static subword tokenization algorithms have been an essential component of recent works on language modeling. However, their static nature results in important flaws that degrade the models' downstream performance and robustness. In this work, we propose MANTa, a Module for Adaptive Neural TokenizAtion. MANTa is a differentiable tokenizer trained end-to-end with the language model. The resulting system offers a trade-off between the expressiveness of byte-level models and the speed of models trained using subword tokenization. In addition, our tokenizer is highly explainable since it produces an explicit segmentation of sequences into blocks. We evaluate our pre-trained model on several English datasets from different domains as well as on synthetic noise. We find that MANTa improves robustness to character perturbations and out-of-domain data. We then show that MANTa performs comparably to other models on the general-domain GLUE benchmark. Finally, we show that it is considerably faster than strictly byte-level models.

Large Language Models (LLMs) demonstrate remarkable generalizability across diverse tasks, yet genomic foundation models (GFMs) still require separate finetuning for each downstream application, creating significant overhead as model sizes grow. Moreover, existing GFMs are constrained by rigid output formats, limiting their applicability to various genomic tasks. In this work, we revisit the transformer-based auto-regressive models and introduce Omni-DNA, a family of cross-modal multi-task models ranging from 20 million to 1 billion parameters. Our approach consists of two stages: (i) pretraining on DNA sequences with next token prediction objective, and (ii) expanding the multi-modal task-specific tokens and finetuning for multiple downstream tasks simultaneously. When evaluated on the Nucleotide Transformer and GB benchmarks, Omni-DNA achieves state-of-the-art performance on 18 out of 26 tasks. Through multi-task finetuning, Omni-DNA addresses 10 acetylation and methylation tasks at once, surpassing models trained on each task individually. Finally, we design two complex genomic tasks, DNA2Function and Needle-in-DNA, which map DNA sequences to textual functional descriptions and images, respectively, indicating Omni-DNA's cross-modal capabilities to broaden the scope of genomic applications. All the models are available through https://huggingface.co/collections/zehui127

Subword tokenization is a commonly used input pre-processing step in most recent NLP models. However, it limits the models' ability to leverage end-to-end task learning. Its frequency-based vocabulary creation compromises tokenization in low-resource languages, leading models to produce suboptimal representations. Additionally, the dependency on a fixed vocabulary limits the subword models' adaptability across languages and domains. In this work, we propose a vocabulary-free neural tokenizer by distilling segmentation information from heuristic-based subword tokenization. We pre-train our character-based tokenizer by processing unique words from multilingual corpus, thereby extensively increasing word diversity across languages. Unlike the predefined and fixed vocabularies in subword methods, our tokenizer allows end-to-end task learning, resulting in optimal task-specific tokenization. The experimental results show that replacing the subword tokenizer with our neural tokenizer consistently improves performance on multilingual (NLI) and code-switching (sentiment analysis) tasks, with larger gains in low-resource languages. Additionally, our neural tokenizer exhibits a robust performance on downstream tasks when adversarial noise is present (typos and misspelling), further increasing the initial improvements over statistical subword tokenizers.

Subword tokenization has been widely successful in text-based natural language processing (NLP) tasks with Transformer-based models. As Transformer models become increasingly popular in symbolic music-related studies, it is imperative to investigate the efficacy of subword tokenization in the symbolic music domain. In this paper, we explore subword tokenization techniques, such as byte-pair encoding (BPE), in symbolic music generation and its impact on the overall structure of generated songs. Our experiments are based on three types of MIDI datasets: single track-melody only, multi-track with a single instrument, and multi-track and multi-instrument. We apply subword tokenization on post-musical tokenization schemes and find that it enables the generation of longer songs at the same time and improves the overall structure of the generated music in terms of objective metrics like structure indicator (SI), Pitch Class Entropy, etc. We also compare two subword tokenization methods, BPE and Unigram, and observe that both methods lead to consistent improvements. Our study suggests that subword tokenization is a promising technique for symbolic music generation and may have broader implications for music composition, particularly in cases involving complex data such as multi-track songs.

The success of the GPT series proves that GPT can extract general information from sequences, thereby benefiting all downstream tasks. This motivates us to use pre-trained models to explore the hidden information in DNA sequences. However, data and task requirements in DNA sequence analysis are complexity and diversity as DNA relevant data includes different types of information, such as sequences, expression levels, etc, while there is currently no model specifically designed for these characteristics. Hereby, we present DNAGPT, a generalized foundation model pre-trained on over 10 billion base pairs from 9 species which can be fine-tuned for any DNA sequence analysis task. Our model can simultaneously process or output DNA sequences and numbers. In addition, our unique token design allows users to design prompts according to their own task requirements, making it applicable to any type of task. We have evaluated our model on classification, regression, and generation tasks. We demonstrate that DNAGPT benefits from pre-training, and therefore can bring performance gains to any downstream task. Our model is not only a new attempt in the field of genomes analysis, but also provides a new direction for the application of foundation models in biology.

Image tokenization has enabled major advances in autoregressive image generation by providing compressed, discrete representations that are more efficient to process than raw pixels. While traditional approaches use 2D grid tokenization, recent methods like TiTok have shown that 1D tokenization can achieve high generation quality by eliminating grid redundancies. However, these methods typically use a fixed number of tokens and thus cannot adapt to an image's inherent complexity. We introduce FlexTok, a tokenizer that projects 2D images into variable-length, ordered 1D token sequences. For example, a 256x256 image can be resampled into anywhere from 1 to 256 discrete tokens, hierarchically and semantically compressing its information. By training a rectified flow model as the decoder and using nested dropout, FlexTok produces plausible reconstructions regardless of the chosen token sequence length. We evaluate our approach in an autoregressive generation setting using a simple GPT-style Transformer. On ImageNet, this approach achieves an FID<2 across 8 to 128 tokens, outperforming TiTok and matching state-of-the-art methods with far fewer tokens. We further extend the model to support to text-conditioned image generation and examine how FlexTok relates to traditional 2D tokenization. A key finding is that FlexTok enables next-token prediction to describe images in a coarse-to-fine "visual vocabulary", and that the number of tokens to generate depends on the complexity of the generation task.

In this work, we present VNLP: the first dedicated, complete, open-source, well-documented, lightweight, production-ready, state-of-the-art Natural Language Processing (NLP) package for the Turkish language. It contains a wide variety of tools, ranging from the simplest tasks, such as sentence splitting and text normalization, to the more advanced ones, such as text and token classification models. Its token classification models are based on "Context Model", a novel architecture that is both an encoder and an auto-regressive model. NLP tasks solved by VNLP models include but are not limited to Sentiment Analysis, Named Entity Recognition, Morphological Analysis \& Disambiguation and Part-of-Speech Tagging. Moreover, it comes with pre-trained word embeddings and corresponding SentencePiece Unigram tokenizers. VNLP has an open-source GitHub repository, ReadtheDocs documentation, PyPi package for convenient installation, Python and command-line API and a demo page to test all the functionality. Consequently, our main contribution is a complete, compact, easy-to-install and easy-to-use NLP package for Turkish.

Based on the BioBricks standard, restriction synthesis is a novel catabolic iterative DNA synthesis method that utilizes endonucleases to synthesize a query sequence from a reference sequence. In this work, the reference sequence is built from shorter subsequences by classifying them as applicable or inapplicable for the synthesis method using three different machine learning methods: Support Vector Machines (SVMs), random forest, and Convolution Neural Networks (CNNs). Before applying these methods to the data, a series of feature selection, curation, and reduction steps are applied to create an accurate and representative feature space. Following these preprocessing steps, three different pipelines are proposed to classify subsequences based on their nucleotide sequence and other relevant features corresponding to the restriction sites of over 200 endonucleases. The sensitivity using SVMs, random forest, and CNNs are 94.9%, 92.7%, 91.4%, respectively. Moreover, each method scores lower in specificity with SVMs, random forest, and CNNs resulting in 77.4%, 85.7%, and 82.4%, respectively. In addition to analyzing these results, the misclassifications in SVMs and CNNs are investigated. Across these two models, different features with a derived nucleotide specificity visually contribute more to classification compared to other features. This observation is an important factor when considering new nucleotide sensitivity features for future studies.

Subword tokenization is a common method for vocabulary building in Neural Machine Translation (NMT) models. However, increasingly complex tasks have revealed its disadvantages. First, a vocabulary cannot be modified once it is learned, making it hard to adapt to new words. Second, in multilingual translation, the imbalance in data volumes across different languages spreads to the vocabulary, exacerbating translations involving low-resource languages. While byte-based tokenization addresses these issues, byte-based models struggle with the low information density inherent in UTF-8 byte sequences. Previous works enhance token semantics through local contextualization but fail to select an appropriate contextualizing scope based on the input. Consequently, we propose the Multi-Scale Contextualization (MSC) method, which learns contextualized information of varying scales across different hidden state dimensions. It then leverages the attention module to dynamically integrate the multi-scale contextualized information. Experiments show that MSC significantly outperforms subword-based and other byte-based methods in both multilingual and out-of-domain scenarios. Code can be found in https://github.com/ictnlp/Multiscale-Contextualization.

Building a general-purpose task model similar to ChatGPT has been an important research direction for gene large language models. Instruction fine-tuning is a key component in building ChatGPT, but existing instructions are primarily based on natural language. Natural language and gene sequences have significant differences in tokenization and encoding. Therefore, constructing a multilingual model that can handle both natural language and gene sequences is crucial for solving this problem.In this paper, we expand the capabilities of the LLaMA large language model to include gene language. This involves expanding the vocabulary using the Byte Pair Encoding (BPE) method, specifically tailored for DNA and protein sequences, and conducting further pre-training on these sequences. We then convert various downstream gene task data into a unified format for instruction fine-tuning and further fine-tune the model on this data.Our study demonstrates that a mixed model of gene and natural language, fine-tuned with instructions, achieves results comparable to the current state-of-the-art (SOTA) in tasks such as gene classification and gene sequence interaction. This provides a promising direction for building a unified large language model for gene tasks.

The pretraining data of today's strongest language models is opaque. In particular, little is known about the proportions of various domains or languages represented. In this work, we tackle a task which we call data mixture inference, which aims to uncover the distributional make-up of training data. We introduce a novel attack based on a previously overlooked source of information -- byte-pair encoding (BPE) tokenizers, used by the vast majority of modern language models. Our key insight is that the ordered list of merge rules learned by a BPE tokenizer naturally reveals information about the token frequencies in its training data: the first merge is the most common byte pair, the second is the most common pair after merging the first token, and so on. Given a tokenizer's merge list along with data samples for each category of interest, we formulate a linear program that solves for the proportion of each category in the tokenizer's training set. Importantly, to the extent to which tokenizer training data is representative of the pretraining data, we indirectly learn about the pretraining data. In controlled experiments, we show that our attack recovers mixture ratios with high precision for tokenizers trained on known mixtures of natural languages, programming languages, and data sources. We then apply our approach to off-the-shelf tokenizers released with recent LMs. We confirm much publicly disclosed information about these models, and also make several new inferences: GPT-4o's tokenizer is much more multilingual than its predecessors, training on 39% non-English data; Llama3 extends GPT-3.5's tokenizer primarily for multilingual (48%) use; GPT-3.5's and Claude's tokenizers are trained on predominantly code (~60%). We hope our work sheds light on current design practices for pretraining data, and inspires continued research into data mixture inference for LMs.

One of the most striking findings in modern research on large language models (LLMs) is that scaling up compute during training leads to better results. However, less attention has been given to the benefits of scaling compute during inference. This survey focuses on these inference-time approaches. We explore three areas under a unified mathematical formalism: token-level generation algorithms, meta-generation algorithms, and efficient generation. Token-level generation algorithms, often called decoding algorithms, operate by sampling a single token at a time or constructing a token-level search space and then selecting an output. These methods typically assume access to a language model's logits, next-token distributions, or probability scores. Meta-generation algorithms work on partial or full sequences, incorporating domain knowledge, enabling backtracking, and integrating external information. Efficient generation methods aim to reduce token costs and improve the speed of generation. Our survey unifies perspectives from three research communities: traditional natural language processing, modern LLMs, and machine learning systems.

Supervised named entity recognition (NER) in the biomedical domain is dependent on large sets of annotated texts with the given named entities, whose creation can be time-consuming and expensive. Furthermore, the extraction of new entities often requires conducting additional annotation tasks and retraining the model. To address these challenges, this paper proposes a transformer-based method for zero- and few-shot NER in the biomedical domain. The method is based on transforming the task of multi-class token classification into binary token classification (token contains the searched entity or does not contain the searched entity) and pre-training on a larger amount of datasets and biomedical entities, from where the method can learn semantic relations between the given and potential classes. We have achieved average F1 scores of 35.44% for zero-shot NER, 50.10% for one-shot NER, 69.94% for 10-shot NER, and 79.51% for 100-shot NER on 9 diverse evaluated biomedical entities with PubMedBERT fine-tuned model. The results demonstrate the effectiveness of the proposed method for recognizing new entities with limited examples, with comparable or better results from the state-of-the-art zero- and few-shot NER methods.

Tokenization is an important preprocessing step in the training and inference of large language models (LLMs). While there has been extensive research on the expressive power of the neural achitectures used in LLMs, the impact of tokenization has not been well understood. In this work, we demonstrate that tokenization, irrespective of the algorithm used, acts as an inverse homomorphism between strings and tokens. This suggests that the character space of the source language and the token space of the tokenized language are homomorphic, preserving the structural properties of the source language. Additionally, we explore the concept of proper tokenization, which refers to an unambiguous tokenization returned from the tokenizer. Our analysis reveals that the expressiveness of neural architectures in recognizing context-free languages is not affected by tokenization.

Training of a tokenizer plays an important role in the performance of deep learning models. This research aims to understand the performance of tokenizers in five state-of-the-art (SOTA) large language models (LLMs) in the Assamese language of India. The research is important to understand the multi-lingual support for a low-resourced language such as Assamese. Our research reveals that the tokenizer of SUTRA from Two AI performs the best with an average Normalized Sequence Length (NSL) value of 0.45, closely followed by the tokenizer of GPT-4o from Open AI with an average NSL value of 0.54, followed by Gemma 2, Meta Llama 3.1, and Mistral Large Instruct 2407 with an average NSL value of 0.82, 1.4, and 1.48 respectively.

Tokenization significantly influences language models(LMs)' performance. This paper traces the evolution of tokenizers from word-level to subword-level, analyzing how they balance tokens and types to enhance model adaptability while controlling complexity. Despite subword tokenizers like Byte Pair Encoding (BPE) overcoming many word tokenizer limitations, they encounter difficulties in handling non-Latin languages and depend heavily on extensive training data and computational resources to grasp the nuances of multiword expressions (MWEs). This article argues that tokenizers, more than mere technical tools, should drawing inspiration from the cognitive science about human language processing. This study then introduces the "Principle of Least Effort" from cognitive science, that humans naturally seek to reduce cognitive effort, and discusses the benefits of this principle for tokenizer development. Based on this principle, the paper proposes that the Less-is-Better (LiB) model could be a new approach for LLM tokenizer. The LiB model can autonomously learn an integrated vocabulary consisting of subwords, words, and MWEs, which effectively reduces both the numbers of tokens and types. Comparative evaluations show that the LiB tokenizer outperforms existing word and BPE tokenizers, presenting an innovative method for tokenizer development, and hinting at the possibility of future cognitive science-based tokenizers being more efficient.

Scaling the size of language models to tens of billions of parameters has led to impressive performance on a wide range of tasks. At generation, these models are used auto-regressively, requiring a forward pass for each generated token, and thus reading the full set of parameters from memory. This memory access forms the primary bottleneck for generation and it worsens as the model size increases. Moreover, executing a forward pass for multiple tokens in parallel often takes nearly the same time as it does for just one token. These two observations lead to the development of speculative sampling, where a second smaller model is used to draft a few tokens, that are then validated or rejected using a single forward pass of the large model. Unfortunately, this method requires two models that share the same tokenizer and thus limits its adoption. As an alternative, we propose to use parallel decoding as a way to draft multiple tokens from a single model with no computational cost, nor the need for a second model. Our approach only requires an additional input token that marks the words that will be generated simultaneously. We show promising performance (up to 30% speed-up) while requiring only as few as O(d_{emb}) additional parameters.

Over the past decade, the revolution in single-cell sequencing has enabled the simultaneous molecular profiling of various modalities across thousands of individual cells, allowing scientists to investigate the diverse functions of complex tissues and uncover underlying disease mechanisms. Among all the analytical steps, assigning individual cells to specific types is fundamental for understanding cellular heterogeneity. However, this process is usually labor-intensive and requires extensive expert knowledge. Recent advances in large language models (LLMs) have demonstrated their ability to efficiently process and synthesize vast corpora of text to automatically extract essential biological knowledge, such as marker genes, potentially promoting more efficient and automated cell type annotations. To thoroughly evaluate the capability of modern instruction-tuned LLMs in automating the cell type identification process, we introduce SOAR, a comprehensive benchmarking study of LLMs for cell type annotation tasks in single-cell genomics. Specifically, we assess the performance of 8 instruction-tuned LLMs across 11 datasets, spanning multiple cell types and species. Our study explores the potential of LLMs to accurately classify and annotate cell types in single-cell RNA sequencing (scRNA-seq) data, while extending their application to multiomics data through cross-modality translation. Additionally, we evaluate the effectiveness of chain-of-thought (CoT) prompting techniques in generating detailed biological insights during the annotation process. The results demonstrate that LLMs can provide robust interpretations of single-cell data without requiring additional fine-tuning, advancing the automation of cell type annotation in genomics research.

Speech tokenization is the task of representing speech signals as a sequence of discrete units. Such representations can be later used for various downstream tasks including automatic speech recognition, text-to-speech, etc. More relevant to this study, such representation serves as the basis of Speech Language Models. In this work, we tackle the task of speech tokenization under the noisy setup and present NAST: Noise Aware Speech Tokenization for Speech Language Models. NAST is composed of three main components: (i) a predictor; (ii) a residual encoder; and (iii) a decoder. We evaluate the efficiency of NAST considering several spoken language modeling tasks and show that NAST is superior to the evaluated baselines across all setups. Lastly, we analyze NAST and show its disentanglement properties and robustness to signal variations in the form of noise, reverberation, pitch-shift, and time-stretch. Code and pre-trained models are available at https://github.com/ShovalMessica/NAST.

Tokenization algorithms that merge the units of a base vocabulary into larger, variable-rate units have become standard in natural language processing tasks. This idea, however, has been mostly overlooked when the vocabulary consists of phonemes or Discrete Acoustic Units (DAUs), an audio-based representation that is playing an increasingly important role due to the success of discrete language-modeling techniques. In this paper, we showcase the advantages of tokenization of phonetic units and of DAUs on three prediction tasks: grapheme-to-phoneme, grapheme-to-DAUs, and unsupervised speech generation using DAU language modeling. We demonstrate that tokenization yields significant improvements in terms of performance, as well as training and inference speed, across all three tasks. We also offer theoretical insights to provide some explanation for the superior performance observed.

Within the current trend of Pretained Language Models (PLM), emerge more and more criticisms about the ethical andecological impact of such models. In this article, considering these critical remarks, we propose to focus on smallermodels, such as compact models like ALBERT, which are more ecologically virtuous than these PLM. However,PLMs enable huge breakthroughs in Natural Language Processing tasks, such as Spoken and Natural LanguageUnderstanding, classification, Question--Answering tasks. PLMs also have the advantage of being multilingual, and,as far as we know, a multilingual version of compact ALBERT models does not exist. Considering these facts, wepropose the free release of the first version of a multilingual compact ALBERT model, pre-trained using Wikipediadata, which complies with the ethical aspect of such a language model. We also evaluate the model against classicalmultilingual PLMs in classical NLP tasks. Finally, this paper proposes a rare study on the subword tokenizationimpact on language performances.

While there has been a large body of research attempting to circumvent tokenization for language modeling (Clark et al., 2022; Xue et al., 2022), the current consensus is that it is a necessary initial step for designing state-of-the-art performant language models. In this paper, we investigate tokenization from a theoretical point of view by studying the behavior of transformers on simple data generating processes. When trained on data drawn from certain simple k^{th}-order Markov processes for k > 1, transformers exhibit a surprising phenomenon - in the absence of tokenization, they empirically fail to learn the right distribution and predict characters according to a unigram model (Makkuva et al., 2024). With the addition of tokenization, however, we empirically observe that transformers break through this barrier and are able to model the probabilities of sequences drawn from the source near-optimally, achieving small cross-entropy loss. With this observation as starting point, we study the end-to-end cross-entropy loss achieved by transformers with and without tokenization. With the appropriate tokenization, we show that even the simplest unigram models (over tokens) learnt by transformers are able to model the probability of sequences drawn from k^{th}-order Markov sources near optimally. Our analysis provides a justification for the use of tokenization in practice through studying the behavior of transformers on Markovian data.

This paper describes SentencePiece, a language-independent subword tokenizer and detokenizer designed for Neural-based text processing, including Neural Machine Translation. It provides open-source C++ and Python implementations for subword units. While existing subword segmentation tools assume that the input is pre-tokenized into word sequences, SentencePiece can train subword models directly from raw sentences, which allows us to make a purely end-to-end and language independent system. We perform a validation experiment of NMT on English-Japanese machine translation, and find that it is possible to achieve comparable accuracy to direct subword training from raw sentences. We also compare the performance of subword training and segmentation with various configurations. SentencePiece is available under the Apache 2 license at https://github.com/google/sentencepiece.

The rapid growth in the parameters of large language models (LLMs) has made inference latency a fundamental bottleneck, limiting broader application of LLMs. Speculative decoding represents a lossless approach to accelerate inference through a guess-and-verify paradigm, leveraging the parallel capabilities of modern hardware. Some speculative decoding methods rely on additional structures to guess draft tokens, such as small models or parameter-efficient architectures, which need extra training before use. Alternatively, retrieval-based train-free techniques build libraries from pre-existing corpora or by n-gram generation. However, they face challenges like large storage requirements, time-consuming retrieval, and limited adaptability. Observing that candidate tokens generated during the decoding process are likely to reoccur in future sequences, we propose Token Recycling. This approach stores candidate tokens in an adjacency matrix and employs a breadth-first search (BFS)-like algorithm on the matrix to construct a draft tree. The tree is then validated through tree attention. New candidate tokens from the decoding process are then used to update the matrix. Token Recycling requires \textless2MB of additional storage and achieves approximately 2x speedup across all sizes of LLMs. It significantly outperforms existing train-free methods by 30\% and even a training method by 25\%. It can be directly applied to any existing LLMs and tasks without the need for adaptation.

Tokenizers are crucial for encoding information in Large Language Models, but their development has recently stagnated, and they contain inherent weaknesses. Major limitations include computational overhead, ineffective vocabulary use, and unnecessarily large embedding and head layers. Additionally, their performance is biased towards a reference corpus, leading to reduced effectiveness for underrepresented languages. To remedy these issues, we propose T-FREE, which directly embeds words through sparse activation patterns over character triplets, and does not require a reference corpus. T-FREE inherently exploits morphological similarities and allows for strong compression of embedding layers. In our exhaustive experimental evaluation, we achieve competitive downstream performance with a parameter reduction of more than 85% on these layers. Further, T-FREE shows significant improvements in cross-lingual transfer learning.

The success of pretrained transformer language models (LMs) in natural language processing has led to a wide range of pretraining setups. In particular, these models employ a variety of subword tokenization methods, most notably byte-pair encoding (BPE) (Sennrich et al., 2016; Gage, 1994), the WordPiece method (Schuster and Nakajima, 2012), and unigram language modeling (Kudo, 2018), to segment text. However, to the best of our knowledge, the literature does not contain a direct evaluation of the impact of tokenization on language model pretraining. We analyze differences between BPE and unigram LM tokenization, finding that the latter method recovers subword units that align more closely with morphology and avoids problems stemming from BPE's greedy construction procedure. We then compare the fine-tuned task performance of identical transformer masked language models pretrained with these tokenizations. Across downstream tasks and two languages (English and Japanese), we find that the unigram LM tokenization method matches or outperforms BPE. We hope that developers of future pretrained LMs will consider adopting the unigram LM method over the more prevalent BPE.

We propose a novel text-to-speech (TTS) framework centered around a neural transducer. Our approach divides the whole TTS pipeline into semantic-level sequence-to-sequence (seq2seq) modeling and fine-grained acoustic modeling stages, utilizing discrete semantic tokens obtained from wav2vec2.0 embeddings. For a robust and efficient alignment modeling, we employ a neural transducer named token transducer for the semantic token prediction, benefiting from its hard monotonic alignment constraints. Subsequently, a non-autoregressive (NAR) speech generator efficiently synthesizes waveforms from these semantic tokens. Additionally, a reference speech controls temporal dynamics and acoustic conditions at each stage. This decoupled framework reduces the training complexity of TTS while allowing each stage to focus on semantic and acoustic modeling. Our experimental results on zero-shot adaptive TTS demonstrate that our model surpasses the baseline in terms of speech quality and speaker similarity, both objectively and subjectively. We also delve into the inference speed and prosody control capabilities of our approach, highlighting the potential of neural transducers in TTS frameworks.

Current state-of-the-art models for natural language understanding require a preprocessing step to convert raw text into discrete tokens. This process known as tokenization relies on a pre-built vocabulary of words or sub-word morphemes. This fixed vocabulary limits the model's robustness to spelling errors and its capacity to adapt to new domains. In this work, we introduce a novel open-vocabulary language model that adopts a hierarchical two-level approach: one at the word level and another at the sequence level. Concretely, we design an intra-word module that uses a shallow Transformer architecture to learn word representations from their characters, and a deep inter-word Transformer module that contextualizes each word representation by attending to the entire word sequence. Our model thus directly operates on character sequences with explicit awareness of word boundaries, but without biased sub-word or word-level vocabulary. Experiments on various downstream tasks show that our method outperforms strong baselines. We also demonstrate that our hierarchical model is robust to textual corruption and domain shift.

While speculative decoding has recently appeared as a promising direction for accelerating the inference of large language models (LLMs), the speedup and scalability are strongly bounded by the token acceptance rate. Prevalent methods usually organize predicted tokens as independent chains or fixed token trees, which fails to generalize to diverse query distributions. In this paper, we propose DySpec, a faster speculative decoding algorithm with a novel dynamic token tree structure. We begin by bridging the draft distribution and acceptance rate from intuitive and empirical clues, and successfully show that the two variables are strongly correlated. Based on this, we employ a greedy strategy to dynamically expand the token tree at run time. Theoretically, we show that our method can achieve optimal results under mild assumptions. Empirically, DySpec yields a higher acceptance rate and speedup than fixed trees. DySpec can drastically improve the throughput and reduce the latency of token generation across various data distribution and model sizes, which significantly outperforms strong competitors, including Specinfer and Sequoia. Under low temperature setting, DySpec can improve the throughput up to 9.1times and reduce the latency up to 9.4times on Llama2-70B. Under high temperature setting, DySpec can also improve the throughput up to 6.21times, despite the increasing difficulty of speculating more than one token per step for draft model.

Subword tokenization has become the de-facto standard for tokenization, although comparative evaluations of subword vocabulary quality across languages are scarce. Existing evaluation studies focus on the effect of a tokenization algorithm on the performance in downstream tasks, or on engineering criteria such as the compression rate. We present a new evaluation paradigm that focuses on the cognitive plausibility of subword tokenization. We analyze the correlation of the tokenizer output with the response time and accuracy of human performance on a lexical decision task. We compare three tokenization algorithms across several languages and vocabulary sizes. Our results indicate that the UnigramLM algorithm yields less cognitively plausible tokenization behavior and a worse coverage of derivational morphemes, in contrast with prior work.

While many languages possess processes of joining two or more words to create compound words, previous studies have been typically limited only to languages with excessively productive compound formation (e.g., German, Dutch) and there is no public dataset containing compound and non-compound words across a large number of languages. In this work, we systematically study decompounding, the task of splitting compound words into their constituents, at a wide scale. We first address the data gap by introducing a dataset of 255k compound and non-compound words across 56 diverse languages obtained from Wiktionary. We then use this dataset to evaluate an array of Large Language Models (LLMs) on the decompounding task. We find that LLMs perform poorly, especially on words which are tokenized unfavorably by subword tokenization. We thus introduce a novel methodology to train dedicated models for decompounding. The proposed two-stage procedure relies on a fully self-supervised objective in the first stage, while the second, supervised learning stage optionally fine-tunes the model on the annotated Wiktionary data. Our self-supervised models outperform the prior best unsupervised decompounding models by 13.9% accuracy on average. Our fine-tuned models outperform all prior (language-specific) decompounding tools. Furthermore, we use our models to leverage decompounding during the creation of a subword tokenizer, which we refer to as CompoundPiece. CompoundPiece tokenizes compound words more favorably on average, leading to improved performance on decompounding over an otherwise equivalent model using SentencePiece tokenization.

We present a novel approach to data preparation for developing multilingual Indic large language model. Our meticulous data acquisition spans open-source and proprietary sources, including Common Crawl, Indic books, news articles, and Wikipedia, ensuring a diverse and rich linguistic representation. For each Indic language, we design a custom preprocessing pipeline to effectively eliminate redundant and low-quality text content. Additionally, we perform deduplication on Common Crawl data to address the redundancy present in 70% of the crawled web pages. This study focuses on developing high-quality data, optimizing tokenization for our multilingual dataset for Indic large language models with 3B and 7B parameters, engineered for superior performance in Indic languages. We introduce a novel multilingual tokenizer training strategy, demonstrating our custom-trained Indic tokenizer outperforms the state-of-the-art OpenAI Tiktoken tokenizer, achieving a superior token-to-word ratio for Indic languages.

Generating ultra-long sequences with large language models (LLMs) has become increasingly crucial but remains a highly time-intensive task, particularly for sequences up to 100K tokens. While traditional speculative decoding methods exist, simply extending their generation limits fails to accelerate the process and can be detrimental. Through an in-depth analysis, we identify three major challenges hindering efficient generation: frequent model reloading, dynamic key-value (KV) management and repetitive generation. To address these issues, we introduce TOKENSWIFT, a novel framework designed to substantially accelerate the generation process of ultra-long sequences while maintaining the target model's inherent quality. Experimental results demonstrate that TOKENSWIFT achieves over 3 times speedup across models of varying scales (1.5B, 7B, 8B, 14B) and architectures (MHA, GQA). This acceleration translates to hours of time savings for ultra-long sequence generation, establishing TOKENSWIFT as a scalable and effective solution at unprecedented lengths. Code can be found at https://github.com/bigai-nlco/TokenSwift.

Commonly-used transformer language models depend on a tokenization schema which sets an unchangeable subword vocabulary prior to pre-training, destined to be applied to all downstream tasks regardless of domain shift, novel word formations, or other sources of vocabulary mismatch. Recent work has shown that "token-free" models can be trained directly on characters or bytes, but training these models from scratch requires substantial computational resources, and this implies discarding the many domain-specific models that were trained on tokens. In this paper, we present XRayEmb, a method for retrofitting existing token-based models with character-level information. XRayEmb is composed of a character-level "encoder" that computes vector representations of character sequences, and a generative component that decodes from the internal representation to a character sequence. We show that incorporating XRayEmb's learned vectors into sequences of pre-trained token embeddings helps performance on both autoregressive and masked pre-trained transformer architectures and on both sequence-level and sequence tagging tasks, particularly on non-standard English text.

DNA sequence alignment involves assigning short DNA reads to the most probable locations on an extensive reference genome. This process is crucial for various genomic analyses, including variant calling, transcriptomics, and epigenomics. Conventional methods, refined over decades, tackle this challenge in 2 steps: genome indexing followed by efficient search to locate likely positions for given reads. Building on the success of Large Language Models in encoding text into embeddings, where the distance metric captures semantic similarity, recent efforts have explored whether the same Transformer architecture can produce embeddings for DNA sequences. Such models have shown early promise in classifying short DNA sequences, such as detecting coding/non-coding regions, and enhancer, promoter sequences. However, performance at sequence classification tasks does not translate to sequence alignment, where it is necessary to search across the genome to align each read, a significantly longer-range task. We bridge this gap by framing the Sequence Alignment task for Transformer models as an "Embed-Search-Align" task. In this framework, a novel Reference-Free DNA Embedding model generates embeddings of reads and reference fragments, which are projected into a shared vector space where the read-fragment distance is used as a surrogate for alignment. Technical contributions include: (1) Contrastive loss for self-supervised training of DNA sequence representations, facilitating rich reference-free, sequence-level embeddings, and (2) a DNA vector store to enable search across fragments on a global scale. DNA-ESA is 99% accurate when aligning 250-length reads onto a human genome (3gb), rivaling conventional methods such as Bowtie and BWA-Mem. DNA-ESA exceeds the performance of 6 Transformer model baselines such as Nucleotide Transformer, Hyena-DNA, and shows task transfer across chromosomes and species.

Recent advances in multimodal pre-trained models have significantly improved information extraction from visually-rich documents (VrDs), in which named entity recognition (NER) is treated as a sequence-labeling task of predicting the BIO entity tags for tokens, following the typical setting of NLP. However, BIO-tagging scheme relies on the correct order of model inputs, which is not guaranteed in real-world NER on scanned VrDs where text are recognized and arranged by OCR systems. Such reading order issue hinders the accurate marking of entities by BIO-tagging scheme, making it impossible for sequence-labeling methods to predict correct named entities. To address the reading order issue, we introduce Token Path Prediction (TPP), a simple prediction head to predict entity mentions as token sequences within documents. Alternative to token classification, TPP models the document layout as a complete directed graph of tokens, and predicts token paths within the graph as entities. For better evaluation of VrD-NER systems, we also propose two revised benchmark datasets of NER on scanned documents which can reflect real-world scenarios. Experiment results demonstrate the effectiveness of our method, and suggest its potential to be a universal solution to various information extraction tasks on documents.

We present Gyan AI Paramanu ("atom"), a family of novel language models for Indian languages. It is a collection of auto-regressive monolingual, bilingual, and multilingual Indic language models pretrained from scratch on a single GPU for 10 Indian languages (Assamese, Bangla, Hindi, Konkani, Maithili, Marathi, Odia, Sanskrit, Tamil, Telugu) across 5 scripts (Bangla, Devanagari, Odia, Tamil, Telugu) of varying sizes ranging from 13.29M to 367.5M.The models are pretrained with a context size of 1024 on a single GPU. The models are very efficient, small, fast, and powerful. We have also developed an efficient most advanced Indic tokenizer that can even tokenize unseen languages. In order to avoid the "curse of multi-linguality" in our multilingual mParamanu model, we pretrained on comparable corpora by typological grouping using the same script. We performed human evaluation of our pretrained models for open end text generation on grammar, coherence, creativity, and factuality metrics for Bangla, Hindi, and Sanskrit. Our Bangla, Hindi, and Sanskrit models outperformed GPT-3.5-Turbo (ChatGPT), Bloom 7B, LLaMa-2 7B, OPT 6.7B, GPT-J 6B, GPTNeo 1.3B, GPT2-XL large language models (LLMs) by a large margin despite being smaller in size by 66 to 20 times compared to standard 7B LLMs. To run inference on our pretrained models, CPU is enough, and GPU is not needed. We also instruction-tuned our pretrained Bangla, Hindi, Marathi, Tamil, and Telugu models on 23k instructions in respective languages. Our pretrained and instruction-tuned models which are first of its kind, most powerful efficient small generative language models ever developed for Indic languages, and the various results lead to the conclusion that high quality generative language models are possible without high amount of compute power and humongous number of parameters. We plan to release our models at https://www.bharatgpts.com.

Most current popular subword tokenizers are trained based on word frequency statistics over a corpus, without considering information about co-occurrence or context. Nevertheless, the resulting vocabularies are used in language models' highly contextualized settings. We present SaGe, a tokenizer that tailors subwords for their downstream use by baking in the contextualized signal at the vocabulary creation phase. We show that SaGe does a better job than current widespread tokenizers in keeping token contexts cohesive, while not incurring a large price in terms of encoding efficiency or domain robustness. SaGe improves performance on English GLUE classification tasks as well as on NER, and on Inference and NER in Turkish, demonstrating its robustness to language properties such as morphological exponence and agglutination.

Tokenization is fundamental to pretrained language models (PLMs). Existing tokenization methods for Chinese PLMs typically treat each character as an indivisible token. However, they ignore the unique feature of the Chinese writing system where additional linguistic information exists below the character level, i.e., at the sub-character level. To utilize such information, we propose sub-character (SubChar for short) tokenization. Specifically, we first encode the input text by converting each Chinese character into a short sequence based on its glyph or pronunciation, and then construct the vocabulary based on the encoded text with sub-word segmentation. Experimental results show that SubChar tokenizers have two main advantages over existing tokenizers: 1) They can tokenize inputs into much shorter sequences, thus improving the computational efficiency. 2) Pronunciation-based SubChar tokenizers can encode Chinese homophones into the same transliteration sequences and produce the same tokenization output, hence being robust to homophone typos. At the same time, models trained with SubChar tokenizers perform competitively on downstream tasks. We release our code and models at https://github.com/thunlp/SubCharTokenization to facilitate future work.

Transformer models are foundational to natural language processing (NLP) and computer vision. Despite various recent works devoted to reducing the quadratic cost of such models (as a function of the sequence length n), dealing with ultra long sequences efficiently (e.g., with more than 16K tokens) remains challenging. Applications such as answering questions based on an entire book or summarizing a scientific article are inefficient or infeasible. In this paper, we propose to significantly reduce the dependency of a Transformer model's complexity on n, by compressing the input into a representation whose size r is independent of n at each layer. Specifically, by exploiting the fact that in many tasks, only a small subset of special tokens (we call VIP-tokens) are most relevant to the final prediction, we propose a VIP-token centric compression (Vcc) scheme which selectively compresses the input sequence based on their impact on approximating the representation of these VIP-tokens. Compared with competitive baselines, the proposed algorithm not only is efficient (achieving more than 3times efficiency improvement compared to baselines on 4K and 16K lengths), but also achieves competitive or better performance on a large number of tasks. Further, we show that our algorithm can be scaled to 128K tokens (or more) while consistently offering accuracy improvement.

Effective training of today's large language models (LLMs) depends on large batches and long sequences for throughput and accuracy. To handle variable-length sequences on hardware accelerators, it is common practice to introduce padding tokens, so that all sequences in a batch have the same length. We show in this paper that the variation in sequence lengths in common NLP datasets is such that up to 50% of all tokens can be padding. In less common, but not extreme, cases (e.g. GLUE-cola with sequence length 128), the ratio is up to 89%. Existing methods to address the resulting inefficiency are complicated by the need to avoid cross-contamination in self-attention, by a reduction in accuracy when sequence ordering information is lost, or by customized kernel implementations only valid for specific accelerators. This paper introduces a new formalization of sequence packing in the context of the well-studied bin packing problem, and presents new algorithms based on this formulation which, for example, confer a 2x speedup for phase 2 pre-training in BERT. We show how existing models can be adapted to ensure mathematical equivalence between the original and packed models, meaning that packed models can be trained with existing pre-training and fine-tuning practices.

Training monolingual language models for low and mid-resource languages is made challenging by limited and often inadequate pretraining data. In this study, we propose a novel model conversion strategy to address this issue, adapting high-resources monolingual language models to a new target language. By generalizing over a word translation dictionary encompassing both the source and target languages, we map tokens from the target tokenizer to semantically similar tokens from the source language tokenizer. This one-to-many token mapping improves tremendously the initialization of the embedding table for the target language. We conduct experiments to convert high-resource models to mid- and low-resource languages, namely Dutch and Frisian. These converted models achieve a new state-of-the-art performance on these languages across all sorts of downstream tasks. By reducing significantly the amount of data and time required for training state-of-the-art models, our novel model conversion strategy has the potential to benefit many languages worldwide.

Large multilingual pretrained language models (mPLMs) have become the de facto state of the art for cross-lingual transfer in NLP. However, their large-scale deployment to many languages, besides pretraining data scarcity, is also hindered by the increase in vocabulary size and limitations in their parameter budget. In order to boost the capacity of mPLMs to deal with low-resource and unseen languages, we explore the potential of leveraging transliteration on a massive scale. In particular, we explore the UROMAN transliteration tool, which provides mappings from UTF-8 to Latin characters for all the writing systems, enabling inexpensive romanization for virtually any language. We first focus on establishing how UROMAN compares against other language-specific and manually curated transliterators for adapting multilingual PLMs. We then study and compare a plethora of data- and parameter-efficient strategies for adapting the mPLMs to romanized and non-romanized corpora of 14 diverse low-resource languages. Our results reveal that UROMAN-based transliteration can offer strong performance for many languages, with particular gains achieved in the most challenging setups: on languages with unseen scripts and with limited training data without any vocabulary augmentation. Further analyses reveal that an improved tokenizer based on romanized data can even outperform non-transliteration-based methods in the majority of languages.

Token-based masked generative models are gaining popularity for their fast inference time with parallel decoding. While recent token-based approaches achieve competitive performance to diffusion-based models, their generation performance is still suboptimal as they sample multiple tokens simultaneously without considering the dependence among them. We empirically investigate this problem and propose a learnable sampling model, Text-Conditioned Token Selection (TCTS), to select optimal tokens via localized supervision with text information. TCTS improves not only the image quality but also the semantic alignment of the generated images with the given texts. To further improve the image quality, we introduce a cohesive sampling strategy, Frequency Adaptive Sampling (FAS), to each group of tokens divided according to the self-attention maps. We validate the efficacy of TCTS combined with FAS with various generative tasks, demonstrating that it significantly outperforms the baselines in image-text alignment and image quality. Our text-conditioned sampling framework further reduces the original inference time by more than 50% without modifying the original generative model.

Transformer-based language models, more specifically BERT-based architectures have achieved state-of-the-art performance in many downstream tasks. However, for a relatively low-resource language such as Thai, the choices of models are limited to training a BERT-based model based on a much smaller dataset or finetuning multi-lingual models, both of which yield suboptimal downstream performance. Moreover, large-scale multi-lingual pretraining does not take into account language-specific features for Thai. To overcome these limitations, we pretrain a language model based on RoBERTa-base architecture on a large, deduplicated, cleaned training set (78GB in total size), curated from diverse domains of social media posts, news articles and other publicly available datasets. We apply text processing rules that are specific to Thai most importantly preserving spaces, which are important chunk and sentence boundaries in Thai before subword tokenization. We also experiment with word-level, syllable-level and SentencePiece tokenization with a smaller dataset to explore the effects on tokenization on downstream performance. Our model wangchanberta-base-att-spm-uncased trained on the 78.5GB dataset outperforms strong baselines (NBSVM, CRF and ULMFit) and multi-lingual models (XLMR and mBERT) on both sequence classification and token classification tasks in human-annotated, mono-lingual contexts.

Large language models have revolutionized natural language processing by leveraging self-supervised pretraining on vast textual data. Inspired by this success, researchers have investigated complicated speech tokenization methods to discretize continuous speech signals so that language modeling techniques can be applied to speech data. However, existing approaches either model semantic tokens, potentially losing acoustic information, or model acoustic tokens, risking the loss of semantic information. Having multiple token types also complicates the architecture and requires additional pretraining. Here we show that discretizing mel-filterbank channels into discrete intensity bins produces a simple representation (dMel), that performs better than other existing speech tokenization methods. Using a transformer decoder-only architecture for speech-text modeling, we comprehensively evaluate different speech tokenization methods on speech recognition (ASR), speech synthesis (TTS). Our results demonstrate the effectiveness of dMel in achieving high performance on both tasks within a unified framework, paving the way for efficient and effective joint modeling of speech and text.

We present three innovations in tokenization and subword segmentation. First, we propose to use unsupervised morphological analysis with Morfessor as pre-tokenization. Second, we present an algebraic method for obtaining subword embeddings grounded in a word embedding space. Based on that, we design a novel subword segmentation algorithm that uses the embeddings, ensuring that the procedure considers lexical meaning. Third, we introduce an efficient segmentation algorithm based on a subword bigram model that can be initialized with the lexically aware segmentation method to avoid using Morfessor and large embedding tables at inference time. We evaluate the proposed approaches using two intrinsic metrics and measure their performance on two downstream tasks: part-of-speech tagging and machine translation. Our experiments show significant improvements in the morphological plausibility of the segmentation when evaluated using segmentation precision on morpheme boundaries and improved R\'enyi efficiency in 8 languages. Although the proposed tokenization methods do not have a large impact on automatic translation quality, we observe consistent performance gains in the arguably more morphological task of part-of-speech tagging.

The task of Grammatical Error Correction (GEC) has received remarkable attention with wide applications in Natural Language Processing (NLP) in recent years. While one of the key principles of GEC is to keep the correct parts unchanged and avoid over-correction, previous sequence-to-sequence (seq2seq) models generate results from scratch, which are not guaranteed to follow the original sentence structure and may suffer from the over-correction problem. In the meantime, the recently proposed sequence tagging models can overcome the over-correction problem by only generating edit operations, but are conditioned on human designed language-specific tagging labels. In this paper, we combine the pros and alleviate the cons of both models by proposing a novel Sequence-to-Action~(S2A) module. The S2A module jointly takes the source and target sentences as input, and is able to automatically generate a token-level action sequence before predicting each token, where each action is generated from three choices named SKIP, COPY and GENerate. Then the actions are fused with the basic seq2seq framework to provide final predictions. We conduct experiments on the benchmark datasets of both English and Chinese GEC tasks. Our model consistently outperforms the seq2seq baselines, while being able to significantly alleviate the over-correction problem as well as holding better generality and diversity in the generation results compared to the sequence tagging models.

RNA is a vital biomolecule with numerous roles and functions within cells, and interest in targeting it for therapeutic purposes has grown significantly in recent years. However, fully understanding and predicting RNA behavior, particularly for applications in drug discovery, remains a challenge due to the complexity of RNA structures and interactions. While foundational models in biology have demonstrated success in modeling several biomolecules, especially proteins, achieving similar breakthroughs for RNA has proven more difficult. Current RNA models have yet to match the performance observed in the protein domain, leaving an important gap in computational biology. In this work, we present ChaRNABERT, a suite of sample and parameter-efficient RNA foundational models, that through a learnable tokenization process, are able to reach state-of-the-art performance on several tasks in established benchmarks. We extend its testing in relevant downstream tasks such as RNA-protein and aptamer-protein interaction prediction. Weights and inference code for ChaRNABERT-8M will be provided for academic research use. The other models will be available upon request.

The disconnect between tokenizer creation and model training in language models has been known to allow for certain inputs, such as the infamous SolidGoldMagikarp token, to induce unwanted behaviour. Although such `glitch tokens' that are present in the tokenizer vocabulary, but are nearly or fully absent in training, have been observed across a variety of different models, a consistent way of identifying them has been missing. We present a comprehensive analysis of Large Language Model (LLM) tokenizers, specifically targeting this issue of detecting untrained and under-trained tokens. Through a combination of tokenizer analysis, model weight-based indicators, and prompting techniques, we develop effective methods for automatically detecting these problematic tokens. Our findings demonstrate the prevalence of such tokens across various models and provide insights into improving the efficiency and safety of language models.

This research aims to accelerate the inference speed of large language models (LLMs) with billions of parameters. We propose Smart Parallel Auto-Correct dEcoding (SPACE), an innovative approach designed for achieving lossless acceleration of LLMs. By integrating semi-autoregressive inference and speculative decoding capabilities, SPACE uniquely enables autoregressive LLMs to parallelize token generation and verification. This is realized through a specialized semi-autoregressive supervised fine-tuning process that equips existing LLMs with the ability to simultaneously predict multiple tokens. Additionally, an auto-correct decoding algorithm facilitates the simultaneous generation and verification of token sequences within a single model invocation. Through extensive experiments on a range of LLMs, SPACE has demonstrated inference speedup ranging from 2.7x-4.0x on HumanEval-X while maintaining output quality.

The prevalent use of Byte Pair Encoding (BPE) in Large Language Models (LLMs) facilitates robust handling of subword units and avoids issues of out-of-vocabulary words. Despite its success, a critical challenge persists: long tokens, rich in semantic information, have fewer occurrences in tokenized datasets compared to short tokens, which can result in imbalanced learning issue across different tokens. To address that, we propose LBPE, which prioritizes long tokens during the encoding process. LBPE generates tokens according to their reverse ranks of token length rather than their ranks in the vocabulary, granting longer tokens higher priority during the encoding process. Consequently, LBPE smooths the frequency differences between short and long tokens, and thus mitigates the learning imbalance. Extensive experiments across diverse language modeling tasks demonstrate that LBPE consistently outperforms the original BPE, well demonstrating its effectiveness.

Recent works have widely adopted large language model pretraining for source code, suggested source code-specific pretraining objectives and investigated the applicability of various Transformer-based language model architectures for source code. This work investigates another important aspect of such models, namely the effect of different subtokenization options, and aims at identifying most effective and length-efficient subtokenizations, taking into account code specifics. We propose subtokenziation that reduces average length by 17% without downstream performance drop, and show that a carefully chosen subtokenization may improve quality by 0.5-2%, possibly with some length increase.

We study lossless acceleration for seq2seq generation with a novel decoding algorithm -- Aggressive Decoding. Unlike the previous efforts (e.g., non-autoregressive decoding) speeding up seq2seq generation at the cost of quality loss, our approach aims to yield the identical (or better) generation compared with autoregressive decoding but in a significant speedup, achieved by innovative cooperation of aggressive decoding and verification that are both efficient due to parallel computing. We propose two Aggressive Decoding paradigms for 2 kinds of seq2seq tasks: 1) For the seq2seq tasks whose inputs and outputs are highly similar (e.g., Grammatical Error Correction), we propose Input-guided Aggressive Decoding (IAD) that aggressively copies from the input sentence as drafted decoded tokens to verify in parallel; 2) For other general seq2seq tasks (e.g., Machine Translation), we propose Generalized Aggressive Decoding (GAD) that first employs an additional non-autoregressive decoding model for aggressive decoding and then verifies in parallel in the autoregressive manner. We test Aggressive Decoding on the most popular 6-layer Transformer model on GPU in multiple seq2seq tasks: 1) For IAD, we show that it can introduce a 7x-9x speedup for the Transformer in Grammatical Error Correction and Text Simplification tasks with the identical results as greedy decoding; 2) For GAD, we observe a 3x-5x speedup with the identical or even better quality in two important seq2seq tasks: Machine Translation and Abstractive Summarization. Moreover, Aggressive Decoding can benefit even more from stronger computing devices that are better at parallel computing. Given the lossless quality as well as significant and promising speedup, we believe Aggressive Decoding may potentially evolve into a de facto standard for efficient and lossless seq2seq generation in the near future.

Pre-trained Programming Language Models (PPLMs) achieved many recent states of the art results for many code-related software engineering tasks. Though some studies use data flow or propose tree-based models that utilize Abstract Syntax Tree (AST), most PPLMs do not fully utilize the rich syntactical information in source code. Still, the input is considered a sequence of tokens. There are two issues; the first is computational inefficiency due to the quadratic relationship between input length and attention complexity. Second, any syntactical information, when needed as an extra input to the current PPLMs, requires the model to be pre-trained from scratch, wasting all the computational resources already used for pre-training the current models. In this work, we propose Named Entity Recognition (NER) adapters, lightweight modules that can be inserted into Transformer blocks to learn type information extracted from the AST. These adapters can be used with current PPLMs such as CodeBERT, GraphCodeBERT, and CodeT5. We train the NER adapters using a novel Token Type Classification objective function (TTC). We insert our proposed work in CodeBERT, building CodeBERTER, and evaluate the performance on two tasks of code refinement and code summarization. CodeBERTER improves the accuracy of code refinement from 16.4 to 17.8 while using 20% of training parameter budget compared to the fully fine-tuning approach, and the BLEU score of code summarization from 14.75 to 15.90 while reducing 77% of training parameters compared to the fully fine-tuning approach.

Current image tokenization methods require a large number of tokens to capture the information contained within images. Although the amount of information varies across images, most image tokenizers only support fixed-length tokenization, leading to inefficiency in token allocation. In this study, we introduce One-D-Piece, a discrete image tokenizer designed for variable-length tokenization, achieving quality-controllable mechanism. To enable variable compression rate, we introduce a simple but effective regularization mechanism named "Tail Token Drop" into discrete one-dimensional image tokenizers. This method encourages critical information to concentrate at the head of the token sequence, enabling support of variadic tokenization, while preserving state-of-the-art reconstruction quality. We evaluate our tokenizer across multiple reconstruction quality metrics and find that it delivers significantly better perceptual quality than existing quality-controllable compression methods, including JPEG and WebP, at smaller byte sizes. Furthermore, we assess our tokenizer on various downstream computer vision tasks, including image classification, object detection, semantic segmentation, and depth estimation, confirming its adaptability to numerous applications compared to other variable-rate methods. Our approach demonstrates the versatility of variable-length discrete image tokenization, establishing a new paradigm in both compression efficiency and reconstruction performance. Finally, we validate the effectiveness of tail token drop via detailed analysis of tokenizers.

In multilingual settings, non-Latin scripts and low-resource languages are usually disadvantaged in terms of language models' utility, efficiency, and cost. Specifically, previous studies have reported multiple modeling biases that the current tokenization algorithms introduce to non-Latin script languages, the main one being over-segmentation. In this work, we propose MAGNET; multilingual adaptive gradient-based tokenization to reduce over-segmentation via adaptive gradient-based subword tokenization. MAGNET learns to predict segment boundaries between byte tokens in a sequence via sub-modules within the model, which act as internal boundary predictors (tokenizers). Previous gradient-based tokenization methods aimed for uniform compression across sequences by integrating a single boundary predictor during training and optimizing it end-to-end through stochastic reparameterization alongside the next token prediction objective. However, this approach still results in over-segmentation for non-Latin script languages in multilingual settings. In contrast, MAGNET offers a customizable architecture where byte-level sequences are routed through language-script-specific predictors, each optimized for its respective language script. This modularity enforces equitable segmentation granularity across different language scripts compared to previous methods. Through extensive experiments, we demonstrate that in addition to reducing segmentation disparities, MAGNET also enables faster language modelling and improves downstream utility.

Large language models (LLMs) have notably enhanced the fluency and diversity of machine-generated text. However, this progress also presents a significant challenge in detecting the origin of a given text, and current research on detection methods lags behind the rapid evolution of LLMs. Conventional training-based methods have limitations in flexibility, particularly when adapting to new domains, and they often lack explanatory power. To address this gap, we propose a novel training-free detection strategy called Divergent N-Gram Analysis (DNA-GPT). Given a text, we first truncate it in the middle and then use only the preceding portion as input to the LLMs to regenerate the new remaining parts. By analyzing the differences between the original and new remaining parts through N-gram analysis in black-box or probability divergence in white-box, we can clearly illustrate significant discrepancies between machine-generated and human-written text. We conducted extensive experiments on the most advanced LLMs from OpenAI, including text-davinci-003, GPT-3.5-turbo, and GPT-4, as well as open-source models such as GPT-NeoX-20B and LLaMa-13B. Results show that our zero-shot approach exhibits state-of-the-art performance in distinguishing between human and GPT-generated text on four English and one German dataset, outperforming OpenAI's own classifier, which is trained on millions of text. Additionally, our methods provide reasonable explanations and evidence to support our claim, which is a unique feature of explainable detection. Our method is also robust under the revised text attack and can additionally solve model sourcing. Codes are available at https://github.com/Xianjun-Yang/DNA-GPT.

Large language models show great potential in generating and optimizing code. Widely used sampling methods such as Nucleus Sampling increase the diversity of generation but often produce repeated samples for low temperatures and incoherent samples for high temperatures. Furthermore, the temperature coefficient has to be tuned for each task, limiting its usability. We present Priority Sampling, a simple and deterministic sampling technique that produces unique samples ordered by the model's confidence. Each new sample expands the unexpanded token with the highest probability in the augmented search tree. Additionally, Priority Sampling supports generation based on regular expression that provides a controllable and structured exploration process. Priority Sampling outperforms Nucleus Sampling for any number of samples, boosting the performance of the original model from 2.87% to 5% improvement over -Oz. Moreover, it outperforms the autotuner used for the generation of labels for the training of the original model in just 30 samples.

In infilling tasks, sub-tokens, representing instances where a complete token is segmented into two parts, often emerge at the boundaries of prefixes, middles, and suffixes. Traditional methods focused on training models at the token level, leading to sub-optimal performance in character-level infilling tasks during the inference stage. Alternately, some approaches considered character-level infilling, but they relied on predicting sub-tokens in inference, yet this strategy diminished ability in character-level infilling tasks due to the large perplexity of the model on sub-tokens. In this paper, we introduce FIM-SE, which stands for Fill-In-the-Middle with both Starting and Ending character constraints. The proposed method addresses character-level infilling tasks by utilizing a line-level format to avoid predicting any sub-token in inference. In addition, we incorporate two special tokens to signify the rest of the incomplete lines, thereby enhancing generation guidance. Extensive experiments demonstrate that our proposed approach surpasses previous methods, offering a significant advantage. Code is available at https://github.com/SenseLLM/FIM-SE.

The field of bioinformatics has seen significant progress, making the cross-modal text-molecule retrieval task increasingly vital. This task focuses on accurately retrieving molecule structures based on textual descriptions, by effectively aligning textual descriptions and molecules to assist researchers in identifying suitable molecular candidates. However, many existing approaches overlook the details inherent in molecule sub-structures. In this work, we introduce the Optimal TRansport-based Multi-grained Alignments model (ORMA), a novel approach that facilitates multi-grained alignments between textual descriptions and molecules. Our model features a text encoder and a molecule encoder. The text encoder processes textual descriptions to generate both token-level and sentence-level representations, while molecules are modeled as hierarchical heterogeneous graphs, encompassing atom, motif, and molecule nodes to extract representations at these three levels. A key innovation in ORMA is the application of Optimal Transport (OT) to align tokens with motifs, creating multi-token representations that integrate multiple token alignments with their corresponding motifs. Additionally, we employ contrastive learning to refine cross-modal alignments at three distinct scales: token-atom, multitoken-motif, and sentence-molecule, ensuring that the similarities between correctly matched text-molecule pairs are maximized while those of unmatched pairs are minimized. To our knowledge, this is the first attempt to explore alignments at both the motif and multi-token levels. Experimental results on the ChEBI-20 and PCdes datasets demonstrate that ORMA significantly outperforms existing state-of-the-art (SOTA) models.

Image tokenizers form the foundation of modern text-to-image generative models but are notoriously difficult to train. Furthermore, most existing text-to-image models rely on large-scale, high-quality private datasets, making them challenging to replicate. In this work, we introduce Text-Aware Transformer-based 1-Dimensional Tokenizer (TA-TiTok), an efficient and powerful image tokenizer that can utilize either discrete or continuous 1-dimensional tokens. TA-TiTok uniquely integrates textual information during the tokenizer decoding stage (i.e., de-tokenization), accelerating convergence and enhancing performance. TA-TiTok also benefits from a simplified, yet effective, one-stage training process, eliminating the need for the complex two-stage distillation used in previous 1-dimensional tokenizers. This design allows for seamless scalability to large datasets. Building on this, we introduce a family of text-to-image Masked Generative Models (MaskGen), trained exclusively on open data while achieving comparable performance to models trained on private data. We aim to release both the efficient, strong TA-TiTok tokenizers and the open-data, open-weight MaskGen models to promote broader access and democratize the field of text-to-image masked generative models.

Vision tokens in multimodal large language models often dominate huge computational overhead due to their excessive length compared to linguistic modality. Abundant recent methods aim to solve this problem with token pruning, which first defines an importance criterion for tokens and then prunes the unimportant vision tokens during inference. However, in this paper, we show that the importance is not an ideal indicator to decide whether a token should be pruned. Surprisingly, it usually results in inferior performance than random token pruning and leading to incompatibility to efficient attention computation operators.Instead, we propose DART (Duplication-Aware Reduction of Tokens), which prunes tokens based on its duplication with other tokens, leading to significant and training-free acceleration. Concretely, DART selects a small subset of pivot tokens and then retains the tokens with low duplication to the pivots, ensuring minimal information loss during token pruning. Experiments demonstrate that DART can prune 88.9% vision tokens while maintaining comparable performance, leading to a 1.99times and 2.99times speed-up in total time and prefilling stage, respectively, with good compatibility to efficient attention operators. Our codes are available at https://github.com/ZichenWen1/DART.

Speculative decoding emerges as a pivotal technique for enhancing the inference speed of Large Language Models (LLMs). Despite recent research aiming to improve prediction efficiency, multi-sample speculative decoding has been overlooked due to varying numbers of accepted tokens within a batch in the verification phase. Vanilla method adds padding tokens in order to ensure that the number of new tokens remains consistent across samples. However, this increases the computational and memory access overhead, thereby reducing the speedup ratio. We propose a novel method that can resolve the issue of inconsistent tokens accepted by different samples without necessitating an increase in memory or computing overhead. Furthermore, our proposed method can handle the situation where the prediction tokens of different samples are inconsistent without the need to add padding tokens. Sufficient experiments demonstrate the efficacy of our method. Our code is available at https://github.com/niyunsheng/EMS-SD.

We combine beam search with the probabilistic pruning technique of nucleus sampling to create two deterministic nucleus search algorithms for natural language generation. The first algorithm, p-exact search, locally prunes the next-token distribution and performs an exact search over the remaining space. The second algorithm, dynamic beam search, shrinks and expands the beam size according to the entropy of the candidate's probability distribution. Despite the probabilistic intuition behind nucleus search, experiments on machine translation and summarization benchmarks show that both algorithms reach the same performance levels as standard beam search.

Advancements in DNA sequencing technologies have significantly improved our ability to decode genomic sequences. However, the prediction and interpretation of these sequences remain challenging due to the intricate nature of genetic material. Large language models (LLMs) have introduced new opportunities for biological sequence analysis. Recent developments in genomic language models have underscored the potential of LLMs in deciphering DNA sequences. Nonetheless, existing models often face limitations in robustness and application scope, primarily due to constraints in model structure and training data scale. To address these limitations, we present GENERator, a generative genomic foundation model featuring a context length of 98k base pairs (bp) and 1.2B parameters. Trained on an expansive dataset comprising 386B bp of eukaryotic DNA, the GENERator demonstrates state-of-the-art performance across both established and newly proposed benchmarks. The model adheres to the central dogma of molecular biology, accurately generating protein-coding sequences that translate into proteins structurally analogous to known families. It also shows significant promise in sequence optimization, particularly through the prompt-responsive generation of promoter sequences with specific activity profiles. These capabilities position the GENERator as a pivotal tool for genomic research and biotechnological advancement, enhancing our ability to interpret and predict complex biological systems and enabling precise genomic interventions.

Transformer-based vision models typically tokenize images into fixed-size square patches as input units, which lacks the adaptability to image content and overlooks the inherent pixel grouping structure. Inspired by the subword tokenization widely adopted in language models, we propose an image tokenizer at a subobject level, where the subobjects are represented by semantically meaningful image segments obtained by segmentation models (e.g., segment anything models). To implement a learning system based on subobject tokenization, we first introduced a Sequence-to-sequence AutoEncoder (SeqAE) to compress subobject segments of varying sizes and shapes into compact embedding vectors, then fed the subobject embeddings into a large language model for vision language learning. Empirical results demonstrated that our subobject-level tokenization significantly facilitates efficient learning of translating images into object and attribute descriptions compared to the traditional patch-level tokenization. Codes and models will be open-sourced at https://github.com/ChenDelong1999/subobjects.

Despite their ubiquity in language generation, it remains unknown why truncation sampling heuristics like nucleus sampling are so effective. We provide a theoretical explanation for the effectiveness of the truncation sampling by proving that truncation methods that discard tokens below some probability threshold (the most common type of truncation) can guarantee that all sampled tokens have nonzero true probability. However, thresholds are a coarse heuristic, and necessarily discard some tokens with nonzero true probability as well. In pursuit of a more precise sampling strategy, we show that we can leverage a known source of model errors, the softmax bottleneck, to prove that certain tokens have nonzero true probability, without relying on a threshold. Based on our findings, we develop an experimental truncation strategy and the present pilot studies demonstrating the promise of this type of algorithm. Our evaluations show that our method outperforms its threshold-based counterparts under automatic and human evaluation metrics for low-entropy (i.e., close to greedy) open-ended text generation. Our theoretical findings and pilot experiments provide both insight into why truncation sampling works, and make progress toward more expressive sampling algorithms that better surface the generative capabilities of large language models.

With the emergence of neural audio codecs, which encode multiple streams of discrete tokens from audio, large language models have recently gained attention as a promising approach for zero-shot Text-to-Speech (TTS) synthesis. Despite the ongoing rush towards scaling paradigms, audio tokenization ironically amplifies the scalability challenge, stemming from its long sequence length and the complexity of modelling the multiple sequences. To mitigate these issues, we present CLaM-TTS that employs a probabilistic residual vector quantization to (1) achieve superior compression in the token length, and (2) allow a language model to generate multiple tokens at once, thereby eliminating the need for cascaded modeling to handle the number of token streams. Our experimental results demonstrate that CLaM-TTS is better than or comparable to state-of-the-art neural codec-based TTS models regarding naturalness, intelligibility, speaker similarity, and inference speed. In addition, we examine the impact of the pretraining extent of the language models and their text tokenization strategies on performances.

The ability to generate natural language sequences from source code snippets has a variety of applications such as code summarization, documentation, and retrieval. Sequence-to-sequence (seq2seq) models, adopted from neural machine translation (NMT), have achieved state-of-the-art performance on these tasks by treating source code as a sequence of tokens. We present {scriptsize CODE2SEQ}: an alternative approach that leverages the syntactic structure of programming languages to better encode source code. Our model represents a code snippet as the set of compositional paths in its abstract syntax tree (AST) and uses attention to select the relevant paths while decoding. We demonstrate the effectiveness of our approach for two tasks, two programming languages, and four datasets of up to 16M examples. Our model significantly outperforms previous models that were specifically designed for programming languages, as well as state-of-the-art NMT models. An interactive online demo of our model is available at http://code2seq.org. Our code, data and trained models are available at http://github.com/tech-srl/code2seq.

Large Language Models (LLMs) have exhibited exceptional performance across a spectrum of natural language processing tasks. However, their substantial sizes pose considerable challenges, particularly in computational demands and inference speed, due to their quadratic complexity. In this work, we have identified a key pattern: certain seemingly meaningless special tokens (i.e., separators) contribute disproportionately to attention scores compared to semantically meaningful tokens. This observation suggests that information of the segments between these separator tokens can be effectively condensed into the separator tokens themselves without significant information loss. Guided by this insight, we introduce SepLLM, a plug-and-play framework that accelerates inference by compressing these segments and eliminating redundant tokens. Additionally, we implement efficient kernels for training acceleration. Experimental results across training-free, training-from-scratch, and post-training settings demonstrate SepLLM's effectiveness. Notably, using the Llama-3-8B backbone, SepLLM achieves over 50% reduction in KV cache on the GSM8K-CoT benchmark while maintaining comparable performance. Furthermore, in streaming settings, SepLLM effectively processes sequences of up to 4 million tokens or more while maintaining consistent language modeling capabilities.

Language models pre-trained on biomedical corpora, such as BioBERT, have recently shown promising results on downstream biomedical tasks. Many existing pre-trained models, on the other hand, are resource-intensive and computationally heavy owing to factors such as embedding size, hidden dimension, and number of layers. The natural language processing (NLP) community has developed numerous strategies to compress these models utilising techniques such as pruning, quantisation, and knowledge distillation, resulting in models that are considerably faster, smaller, and subsequently easier to use in practice. By the same token, in this paper we introduce six lightweight models, namely, BioDistilBERT, BioTinyBERT, BioMobileBERT, DistilBioBERT, TinyBioBERT, and CompactBioBERT which are obtained either by knowledge distillation from a biomedical teacher or continual learning on the Pubmed dataset via the Masked Language Modelling (MLM) objective. We evaluate all of our models on three biomedical tasks and compare them with BioBERT-v1.1 to create efficient lightweight models that perform on par with their larger counterparts. All the models will be publicly available on our Huggingface profile at https://huggingface.co/nlpie and the codes used to run the experiments will be available at https://github.com/nlpie-research/Compact-Biomedical-Transformers.

Neural sequence-to-sequence models provide a competitive approach to the task of mapping a question in natural language to an SQL query, also referred to as text-to-SQL generation. The Byte-Pair Encoding algorithm (BPE) has previously been used to improve machine translation (MT) between natural languages. In this work, we adapt BPE for text-to-SQL generation. As the datasets for this task are rather small compared to MT, we present a novel stopping criterion that prevents overfitting the BPE encoding to the training set. Additionally, we present AST BPE, which is a version of BPE that uses the Abstract Syntax Tree (AST) of the SQL statement to guide BPE merges and therefore produce BPE encodings that generalize better. We improved the accuracy of a strong attentive seq2seq baseline on five out of six English text-to-SQL tasks while reducing training time by more than 50% on four of them due to the shortened targets. Finally, on two of these tasks we exceeded previously reported accuracies.

Discrete diffusion or flow models could enable faster and more controllable sequence generation than autoregressive models. We show that na\"ive linear flow matching on the simplex is insufficient toward this goal since it suffers from discontinuities in the training target and further pathologies. To overcome this, we develop Dirichlet flow matching on the simplex based on mixtures of Dirichlet distributions as probability paths. In this framework, we derive a connection between the mixtures' scores and the flow's vector field that allows for classifier and classifier-free guidance. Further, we provide distilled Dirichlet flow matching, which enables one-step sequence generation with minimal performance hits, resulting in O(L) speedups compared to autoregressive models. On complex DNA sequence generation tasks, we demonstrate superior performance compared to all baselines in distributional metrics and in achieving desired design targets for generated sequences. Finally, we show that our classifier-free guidance approach improves unconditional generation and is effective for generating DNA that satisfies design targets. Code is available at https://github.com/HannesStark/dirichlet-flow-matching.

State-of-the-art models in natural language processing rely on separate rigid subword tokenization algorithms, which limit their generalization ability and adaptation to new settings. In this paper, we propose a new model inductive bias that learns a subword tokenization end-to-end as part of the model. To this end, we introduce a soft gradient-based subword tokenization module (GBST) that automatically learns latent subword representations from characters in a data-driven fashion. Concretely, GBST enumerates candidate subword blocks and learns to score them in a position-wise fashion using a block scoring network. We additionally introduce Charformer, a deep Transformer model that integrates GBST and operates on the byte level. Via extensive experiments on English GLUE, multilingual, and noisy text datasets, we show that Charformer outperforms a series of competitive byte-level baselines while generally performing on par and sometimes outperforming subword-based models. Additionally, Charformer is fast, improving the speed of both vanilla byte-level and subword-level Transformers by 28%-100% while maintaining competitive quality. We believe this work paves the way for highly performant token-free models that are trained completely end-to-end.

The integration of molecule and language has garnered increasing attention in molecular science. Recent advancements in Language Models (LMs) have demonstrated potential for the comprehensive modeling of molecule and language. However, existing works exhibit notable limitations. Most existing works overlook the modeling of 3D information, which is crucial for understanding molecular structures and also functions. While some attempts have been made to leverage external structure encoding modules to inject the 3D molecular information into LMs, there exist obvious difficulties that hinder the integration of molecular structure and language text, such as modality alignment and separate tuning. To bridge this gap, we propose 3D-MolT5, a unified framework designed to model both 1D molecular sequence and 3D molecular structure. The key innovation lies in our methodology for mapping fine-grained 3D substructure representations (based on 3D molecular fingerprints) to a specialized 3D token vocabulary for 3D-MolT5. This 3D structure token vocabulary enables the seamless combination of 1D sequence and 3D structure representations in a tokenized format, allowing 3D-MolT5 to encode molecular sequence (SELFIES), molecular structure, and text sequences within a unified architecture. Alongside, we further introduce 1D and 3D joint pre-training to enhance the model's comprehension of these diverse modalities in a joint representation space and better generalize to various tasks for our foundation model. Through instruction tuning on multiple downstream datasets, our proposed 3D-MolT5 shows superior performance than existing methods in molecular property prediction, molecule captioning, and text-based molecule generation tasks. Our code will be available on GitHub soon.

Pipelined NLP systems have largely been superseded by end-to-end neural modeling, yet nearly all commonly-used models still require an explicit tokenization step. While recent tokenization approaches based on data-derived subword lexicons are less brittle than manually engineered tokenizers, these techniques are not equally suited to all languages, and the use of any fixed vocabulary may limit a model's ability to adapt. In this paper, we present CANINE, a neural encoder that operates directly on character sequences, without explicit tokenization or vocabulary, and a pre-training strategy that operates either directly on characters or optionally uses subwords as a soft inductive bias. To use its finer-grained input effectively and efficiently, CANINE combines downsampling, which reduces the input sequence length, with a deep transformer stack, which encodes context. CANINE outperforms a comparable mBERT model by 2.8 F1 on TyDi QA, a challenging multilingual benchmark, despite having 28% fewer model parameters.

Tokenization methods like Byte-Pair Encoding (BPE) enhance computational efficiency in large language models (LLMs) but often obscure internal character structures within tokens. This limitation hinders LLMs' ability to predict precise character positions, which is crucial in tasks like Chinese Spelling Correction (CSC) where identifying the positions of misspelled characters accelerates correction processes. We propose Token Internal Position Awareness (TIPA), a method that significantly improves models' ability to capture character positions within tokens by training them on reverse character prediction tasks using the tokenizer's vocabulary. Experiments demonstrate that TIPA enhances position prediction accuracy in LLMs, enabling more precise identification of target characters in original text. Furthermore, when applied to downstream tasks that do not require exact position prediction, TIPA still boosts performance in tasks needing character-level information, validating its versatility and effectiveness.

Many machine learning tasks can be expressed as the transformation---or transduction---of input sequences into output sequences: speech recognition, machine translation, protein secondary structure prediction and text-to-speech to name but a few. One of the key challenges in sequence transduction is learning to represent both the input and output sequences in a way that is invariant to sequential distortions such as shrinking, stretching and translating. Recurrent neural networks (RNNs) are a powerful sequence learning architecture that has proven capable of learning such representations. However RNNs traditionally require a pre-defined alignment between the input and output sequences to perform transduction. This is a severe limitation since finding the alignment is the most difficult aspect of many sequence transduction problems. Indeed, even determining the length of the output sequence is often challenging. This paper introduces an end-to-end, probabilistic sequence transduction system, based entirely on RNNs, that is in principle able to transform any input sequence into any finite, discrete output sequence. Experimental results for phoneme recognition are provided on the TIMIT speech corpus.

Large Language Models (LLMs) have demonstrated remarkable generalization across diverse tasks, leading individuals to increasingly use them as personal assistants and universal computing engines. Nevertheless, a notable obstacle emerges when feeding numerical/temporal data into these models, such as data sourced from wearables or electronic health records. LLMs employ tokenizers in their input that break down text into smaller units. However, tokenizers are not designed to represent numerical values and might struggle to understand repetitive patterns and context, treating consecutive values as separate tokens and disregarding their temporal relationships. Here, we discuss recent works that employ LLMs for human-centric tasks such as in mobile health sensing and present a case study showing that popular LLMs tokenize temporal data incorrectly. To address that, we highlight potential solutions such as prompt tuning with lightweight embedding layers as well as multimodal adapters, that can help bridge this "modality gap". While the capability of language models to generalize to other modalities with minimal or no finetuning is exciting, this paper underscores the fact that their outputs cannot be meaningful if they stumble over input nuances.

There is growing evidence that pretraining on high quality, carefully thought-out tokens such as code or mathematics plays an important role in improving the reasoning abilities of large language models. For example, Minerva, a PaLM model finetuned on billions of tokens of mathematical documents from arXiv and the web, reported dramatically improved performance on problems that require quantitative reasoning. However, because all known open source web datasets employ preprocessing that does not faithfully preserve mathematical notation, the benefits of large scale training on quantitive web documents are unavailable to the research community. We introduce OpenWebMath, an open dataset inspired by these works containing 14.7B tokens of mathematical webpages from Common Crawl. We describe in detail our method for extracting text and LaTeX content and removing boilerplate from HTML documents, as well as our methods for quality filtering and deduplication. Additionally, we run small-scale experiments by training 1.4B parameter language models on OpenWebMath, showing that models trained on 14.7B tokens of our dataset surpass the performance of models trained on over 20x the amount of general language data. We hope that our dataset, openly released on the Hugging Face Hub, will help spur advances in the reasoning abilities of large language models.

Bidirectional masked Transformers have become the core theme in the current NLP landscape. Despite their impressive benchmarks, a recurring theme in recent research has been to question such models' capacity for syntactic generalization. In this work, we seek to address this question by adding a supervised, token-level supertagging objective to standard unsupervised pretraining, enabling the explicit incorporation of syntactic biases into the network's training dynamics. Our approach is straightforward to implement, induces a marginal computational overhead and is general enough to adapt to a variety of settings. We apply our methodology on Lassy Large, an automatically annotated corpus of written Dutch. Our experiments suggest that our syntax-aware model performs on par with established baselines, despite Lassy Large being one order of magnitude smaller than commonly used corpora.

This paper presents medBERTde, a pre-trained German BERT model specifically designed for the German medical domain. The model has been trained on a large corpus of 4.7 Million German medical documents and has been shown to achieve new state-of-the-art performance on eight different medical benchmarks covering a wide range of disciplines and medical document types. In addition to evaluating the overall performance of the model, this paper also conducts a more in-depth analysis of its capabilities. We investigate the impact of data deduplication on the model's performance, as well as the potential benefits of using more efficient tokenization methods. Our results indicate that domain-specific models such as medBERTde are particularly useful for longer texts, and that deduplication of training data does not necessarily lead to improved performance. Furthermore, we found that efficient tokenization plays only a minor role in improving model performance, and attribute most of the improved performance to the large amount of training data. To encourage further research, the pre-trained model weights and new benchmarks based on radiological data are made publicly available for use by the scientific community.

We present SEED, an elaborate image tokenizer that empowers Large Language Models (LLMs) with the emergent ability to SEE and Draw at the same time. Research on image tokenizers has previously reached an impasse, as frameworks employing quantized visual tokens have lost prominence due to subpar performance and convergence in multimodal comprehension (compared to BLIP-2, etc.) or generation (compared to Stable Diffusion, etc.). Despite the limitations, we remain confident in its natural capacity to unify visual and textual representations, facilitating scalable multimodal training with LLM's original recipe. In this study, we identify two crucial principles for the architecture and training of SEED that effectively ease subsequent alignment with LLMs. (1) Image tokens should be independent of 2D physical patch positions and instead be produced with a 1D causal dependency, exhibiting intrinsic interdependence that aligns with the left-to-right autoregressive prediction mechanism in LLMs. (2) Image tokens should capture high-level semantics consistent with the degree of semantic abstraction in words, and be optimized for both discriminativeness and reconstruction during the tokenizer training phase. As a result, the off-the-shelf LLM is able to perform both image-to-text and text-to-image generation by incorporating our SEED through efficient LoRA tuning. Comprehensive multimodal pretraining and instruction tuning, which may yield improved results, are reserved for future investigation. This version of SEED was trained in 5.7 days using only 64 V100 GPUs and 5M publicly available image-text pairs. Our preliminary study emphasizes the great potential of discrete visual tokens in versatile multimodal LLMs and the importance of proper image tokenizers in broader research.

The recent success of LLMs has been predominantly driven by curating the training dataset composition, scaling of model architectures and dataset sizes and advancements in pretraining objectives, leaving tokenizer influence as a blind spot. Shedding light on this underexplored area, we conduct a comprehensive study on the influence of tokenizer choice on LLM downstream performance by training 24 mono- and multilingual LLMs at a 2.6B parameter scale, ablating different tokenizer algorithms and parameterizations. Our studies highlight that the tokenizer choice can significantly impact the model's downstream performance, training and inference costs. In particular, we find that the common tokenizer evaluation metrics fertility and parity are not always predictive of model downstream performance, rendering these metrics a questionable proxy for the model's downstream performance. Furthermore, we show that multilingual tokenizers trained on the five most frequent European languages require vocabulary size increases of factor three in comparison to English. While English-only tokenizers have been applied to the training of multi-lingual LLMs, we find that this approach results in a severe downstream performance degradation and additional training costs of up to 68%, due to an inefficient tokenization vocabulary.

Many NLP pipelines split text into sentences as one of the crucial preprocessing steps. Prior sentence segmentation tools either rely on punctuation or require a considerable amount of sentence-segmented training data: both central assumptions might fail when porting sentence segmenters to diverse languages on a massive scale. In this work, we thus introduce a multilingual punctuation-agnostic sentence segmentation method, currently covering 85 languages, trained in a self-supervised fashion on unsegmented text, by making use of newline characters which implicitly perform segmentation into paragraphs. We further propose an approach that adapts our method to the segmentation in a given corpus by using only a small number (64-256) of sentence-segmented examples. The main results indicate that our method outperforms all the prior best sentence-segmentation tools by an average of 6.1% F1 points. Furthermore, we demonstrate that proper sentence segmentation has a point: the use of a (powerful) sentence segmenter makes a considerable difference for a downstream application such as machine translation (MT). By using our method to match sentence segmentation to the segmentation used during training of MT models, we achieve an average improvement of 2.3 BLEU points over the best prior segmentation tool, as well as massive gains over a trivial segmenter that splits text into equally sized blocks.

Existing large language models have to run K times to generate a sequence of K tokens. In this paper, we present RecycleGPT, a generative language model with fast decoding speed by recycling pre-generated model states without running the whole model in multiple steps. Our approach relies on the observation that adjacent tokens in a sequence usually have strong correlations and the next token in a sequence can be reasonably guessed or inferred based on the preceding ones. Through theoretical evaluations and practical tests on downstream text generation tasks, we demonstrate the effectiveness of our approach in lowering inference latency, achieving up to 1.4x speedup while preserving high performance.

Retrieval augmentation addresses many critical problems in large language models such as hallucination, staleness, and privacy leaks. However, running retrieval-augmented language models (LMs) is slow and difficult to scale due to processing large amounts of retrieved text. We introduce binary token representations (BTR), which use 1-bit vectors to precompute every token in passages, significantly reducing computation during inference. Despite the potential loss of accuracy, our new calibration techniques and training objectives restore performance. Combined with offline and runtime compression, this only requires 127GB of disk space for encoding 3 billion tokens in Wikipedia. Our experiments show that on five knowledge-intensive NLP tasks, BTR accelerates state-of-the-art inference by up to 4x and reduces storage by over 100x while maintaining over 95% task performance.

Efficient parallelization of Large Language Models (LLMs) with long sequences is essential but challenging due to their significant computational and memory demands, particularly stemming from communication bottlenecks in attention mechanisms. While sequence parallelism (SP) has been introduced as a potential solution, existing methods often suffer from limited scalability or inefficiency, rendering their effectiveness. Ring-Attention demonstrates the potential for scaling sequence processing but faces significant limitations due to its reliance on peer-to-peer (P2P) communication and inefficient utilization of network resources. As the degree of SP increases, the quadratic decrease in computation time per step contrasts sharply with the linear reduction in communication volume, exacerbating communication bottlenecks. To address these challenges, we propose TokenRing, a fine-grained parallel framework that leverages bidirectional P2P communication to effectively overlap computation and data transmission. By partitioning the attention block and concurrently transmitting Query and block outputs (i.e., block_out and block_lse) within a fully connected mesh topology, TokenRing achieves significant reductions in communication overhead and better load balancing. These innovations improve the scalability and efficiency of distributed Transformer models, particularly for long-context sequences. Experimental results demonstrate that TokenRing enhances throughput and reduces communication latency. Moreover, its design adapts seamlessly to various multi-GPU interconnect solutions, such as Huawei Ascend, ensuring broad compatibility and cost-effectiveness for distributed LLM inference and training. The code is available at: https://github.com/ACA-Lab-SJTU/token-ring.

Subword units are an effective way to alleviate the open vocabulary problems in neural machine translation (NMT). While sentences are usually converted into unique subword sequences, subword segmentation is potentially ambiguous and multiple segmentations are possible even with the same vocabulary. The question addressed in this paper is whether it is possible to harness the segmentation ambiguity as a noise to improve the robustness of NMT. We present a simple regularization method, subword regularization, which trains the model with multiple subword segmentations probabilistically sampled during training. In addition, for better subword sampling, we propose a new subword segmentation algorithm based on a unigram language model. We experiment with multiple corpora and report consistent improvements especially on low resource and out-of-domain settings.

Unsupervised parsing, also known as grammar induction, aims to infer syntactic structure from raw text. Recently, binary representation has exhibited remarkable information-preserving capabilities at both lexicon and syntax levels. In this paper, we explore the possibility of leveraging this capability to deduce parsing trees from raw text, relying solely on the implicitly induced grammars within models. To achieve this, we upgrade the bit-level CKY from zero-order to first-order to encode the lexicon and syntax in a unified binary representation space, switch training from supervised to unsupervised under the contrastive hashing framework, and introduce a novel loss function to impose stronger yet balanced alignment signals. Our model shows competitive performance on various datasets, therefore, we claim that our method is effective and efficient enough to acquire high-quality parsing trees from pre-trained language models at a low cost.

Proteins are essential macromolecules defined by their amino acid sequences, which determine their three-dimensional structures and, consequently, their functions in all living organisms. Therefore, generative protein modeling necessitates a multimodal approach to simultaneously model, understand, and generate both sequences and structures. However, existing methods typically use separate models for each modality, limiting their ability to capture the intricate relationships between sequence and structure. This results in suboptimal performance in tasks that requires joint understanding and generation of both modalities. In this paper, we introduce DPLM-2, a multimodal protein foundation model that extends discrete diffusion protein language model (DPLM) to accommodate both sequences and structures. To enable structural learning with the language model, 3D coordinates are converted to discrete tokens using a lookup-free quantization-based tokenizer. By training on both experimental and high-quality synthetic structures, DPLM-2 learns the joint distribution of sequence and structure, as well as their marginals and conditionals. We also implement an efficient warm-up strategy to exploit the connection between large-scale evolutionary data and structural inductive biases from pre-trained sequence-based protein language models. Empirical evaluation shows that DPLM-2 can simultaneously generate highly compatible amino acid sequences and their corresponding 3D structures eliminating the need for a two-stage generation approach. Moreover, DPLM-2 demonstrates competitive performance in various conditional generation tasks, including folding, inverse folding, and scaffolding with multimodal motif inputs, as well as providing structure-aware representations for predictive tasks.

Recent advancements in large language models have facilitated the execution of complex language tasks, not only in English but also in non-English languages. However, the tokenizers of most language models, such as Llama, trained on English-centric corpora, tend to excessively fragment tokens in non-English languages. This issue is especially pronounced in non-roman alphabetic languages, which are often divided at a character or even Unicode level, leading to slower text generation. To address this, our study introduces a novel framework designed to expedite text generation in these languages. This framework predicts larger linguistic units than those of conventional multilingual tokenizers and is specifically tailored to the target language, thereby reducing the number of decoding steps required. Our empirical results demonstrate that the proposed framework increases the generation speed by a factor of 1.9 compared to standard decoding while maintaining the performance of a pre-trained multilingual model on monolingual tasks.

Deploying transformer models in practice is challenging due to their inference cost, which scales quadratically with input sequence length. To address this, we present a novel Learned Token Pruning (LTP) method which adaptively removes unimportant tokens as an input sequence passes through transformer layers. In particular, LTP prunes tokens with an attention score below a threshold value which is learned for each layer during training. Our threshold-based method allows the length of the pruned sequence to vary adaptively based on the input sequence, and avoids algorithmically expensive operations such as top-k token selection. We extensively test the performance of LTP on GLUE tasks and show that our method outperforms the prior state-of-the-art token pruning methods by up to ~2.5% higher accuracy with the same amount of FLOPs. In particular, LTP achieves up to 2.1x FLOPs reduction with less than 1% accuracy drop, which results in up to 1.9x and 2.0x throughput improvement on Intel Haswell CPUs and NVIDIA V100 GPUs, respectively. Furthermore, we demonstrate that LTP is more robust than prior methods to variations on input sentence lengths. Our code has been developed in PyTorch and has been open-sourced.

Transformers achieve unrivalled performance in modelling language, but remain inefficient in terms of memory and time complexity. A possible remedy is to reduce the sequence length in the intermediate layers by pooling fixed-length segments of tokens. Nevertheless, natural units of meaning, such as words or phrases, display varying sizes. To address this mismatch, we equip language models with a dynamic-pooling mechanism, which predicts segment boundaries in an autoregressive fashion. We compare several methods to infer boundaries, including end-to-end learning through stochastic re-parameterisation, supervised learning (based on segmentations from subword tokenizers or spikes in conditional entropy), as well as linguistically motivated boundaries. We perform character-level evaluation on texts from multiple datasets and morphologically diverse languages. The results demonstrate that dynamic pooling, which jointly segments and models language, is both faster and more accurate than vanilla Transformers and fixed-length pooling within the same computational budget.

The use of Project Gutenberg (PG) as a text corpus has been extremely popular in statistical analysis of language for more than 25 years. However, in contrast to other major linguistic datasets of similar importance, no consensual full version of PG exists to date. In fact, most PG studies so far either consider only a small number of manually selected books, leading to potential biased subsets, or employ vastly different pre-processing strategies (often specified in insufficient details), raising concerns regarding the reproducibility of published results. In order to address these shortcomings, here we present the Standardized Project Gutenberg Corpus (SPGC), an open science approach to a curated version of the complete PG data containing more than 50,000 books and more than 3 times 10^9 word-tokens. Using different sources of annotated metadata, we not only provide a broad characterization of the content of PG, but also show different examples highlighting the potential of SPGC for investigating language variability across time, subjects, and authors. We publish our methodology in detail, the code to download and process the data, as well as the obtained corpus itself on 3 different levels of granularity (raw text, timeseries of word tokens, and counts of words). In this way, we provide a reproducible, pre-processed, full-size version of Project Gutenberg as a new scientific resource for corpus linguistics, natural language processing, and information retrieval.

We present GlotScript, an open resource and tool for low resource writing system identification. GlotScript-R is a resource that provides the attested writing systems for more than 7,000 languages. It is compiled by aggregating information from existing writing system resources. GlotScript-T is a writing system identification tool that covers all 161 Unicode 15.0 scripts. For an input text, it returns its script distribution where scripts are identified by ISO 15924 codes. We also present two use cases for GlotScript. First, we demonstrate that GlotScript supports cleaning multilingual corpora such as mC4 and OSCAR. Second, we analyze the tokenization of a number of language models such as GPT-4 using GlotScript and provide insights on the coverage of low resource scripts and languages by each language model. We hope that GlotScript will become a useful resource for work on low resource languages in the NLP community. GlotScript-R and GlotScript-T are available at https://github.com/cisnlp/GlotScript.

Large language models such as GPT and Llama are trained with a next-token prediction loss. In this work, we suggest that training language models to predict multiple future tokens at once results in higher sample efficiency. More specifically, at each position in the training corpus, we ask the model to predict the following n tokens using n independent output heads, operating on top of a shared model trunk. Considering multi-token prediction as an auxiliary training task, we measure improved downstream capabilities with no overhead in training time for both code and natural language models. The method is increasingly useful for larger model sizes, and keeps its appeal when training for multiple epochs. Gains are especially pronounced on generative benchmarks like coding, where our models consistently outperform strong baselines by several percentage points. Our 13B parameter models solves 12 % more problems on HumanEval and 17 % more on MBPP than comparable next-token models. Experiments on small algorithmic tasks demonstrate that multi-token prediction is favorable for the development of induction heads and algorithmic reasoning capabilities. As an additional benefit, models trained with 4-token prediction are up to 3 times faster at inference, even with large batch sizes.

Fast and effective automated indexing is critical for search and personalized services. Key phrases that consist of one or more words and represent the main concepts of the document are often used for the purpose of indexing. In this paper, we investigate the use of additional semantic features and pre-processing steps to improve automatic key phrase extraction. These features include the use of signal words and freebase categories. Some of these features lead to significant improvements in the accuracy of the results. We also experimented with 2 forms of document pre-processing that we call light filtering and co-reference normalization. Light filtering removes sentences from the document, which are judged peripheral to its main content. Co-reference normalization unifies several written forms of the same named entity into a unique form. We also needed a "Gold Standard" - a set of labeled documents for training and evaluation. While the subjective nature of key phrase selection precludes a true "Gold Standard", we used Amazon's Mechanical Turk service to obtain a useful approximation. Our data indicates that the biggest improvements in performance were due to shallow semantic features, news categories, and rhetorical signals (nDCG 78.47% vs. 68.93%). The inclusion of deeper semantic features such as Freebase sub-categories was not beneficial by itself, but in combination with pre-processing, did cause slight improvements in the nDCG scores.

Large pre-trained language models for textual data have an unconstrained output space; at each decoding step, they can produce any of 10,000s of sub-word tokens. When fine-tuned to target constrained formal languages like SQL, these models often generate invalid code, rendering it unusable. We propose PICARD (code and trained models available at https://github.com/ElementAI/picard), a method for constraining auto-regressive decoders of language models through incremental parsing. PICARD helps to find valid output sequences by rejecting inadmissible tokens at each decoding step. On the challenging Spider and CoSQL text-to-SQL translation tasks, we show that PICARD transforms fine-tuned T5 models with passable performance into state-of-the-art solutions.

Recent studies have demonstrated the effectiveness of using large language language models (LLMs) in passage ranking. The listwise approaches, such as RankGPT, have become new state-of-the-art in this task. However, the efficiency of RankGPT models is limited by the maximum context length and relatively high latency of LLM inference. To address these issues, in this paper, we propose PE-Rank, leveraging the single passage embedding as a good context compression for efficient listwise passage reranking. By treating each passage as a special token, we can directly input passage embeddings into LLMs, thereby reducing input length. Additionally, we introduce an inference method that dynamically constrains the decoding space to these special tokens, accelerating the decoding process. For adapting the model to reranking, we employ listwise learning to rank loss for training. Evaluation results on multiple benchmarks demonstrate that PE-Rank significantly improves efficiency in both prefilling and decoding, while maintaining competitive ranking effectiveness. {The Code is available at https://github.com/liuqi6777/pe_rank.}

Representing speech as discrete tokens provides a framework for transforming speech into a format that closely resembles text, thus enabling the use of speech as an input to the widely successful large language models (LLMs). Currently, while several speech tokenizers have been proposed, there is ambiguity regarding the properties that are desired from a tokenizer for specific downstream tasks and its overall generalizability. Evaluating the performance of tokenizers across different downstream tasks is a computationally intensive effort that poses challenges for scalability. To circumvent this requirement, we present STAB (Speech Tokenizer Assessment Benchmark), a systematic evaluation framework designed to assess speech tokenizers comprehensively and shed light on their inherent characteristics. This framework provides a deeper understanding of the underlying mechanisms of speech tokenization, thereby offering a valuable resource for expediting the advancement of future tokenizer models and enabling comparative analysis using a standardized benchmark. We evaluate the STAB metrics and correlate this with downstream task performance across a range of speech tasks and tokenizer choices.

Document chunking is a critical task in natural language processing (NLP) that involves dividing a document into meaningful segments. Traditional methods often rely solely on semantic analysis, ignoring the spatial layout of elements, which is crucial for understanding relationships in complex documents. This paper introduces a novel hybrid approach that combines layout structure, semantic analysis, and spatial relationships to enhance the cohesion and accuracy of document chunks. By leveraging bounding box information (bbox) and text embeddings, our method constructs a weighted graph representation of document elements, which is then clustered using spectral clustering. Experimental results demonstrate that this approach outperforms traditional methods, particularly in documents with diverse layouts such as reports, articles, and multi-column designs. The proposed method also ensures that no chunk exceeds a specified token length, making it suitable for use cases where token limits are critical (e.g., language models with input size limitations)

In this article we describe an efficient approach to guiding language model text generation with regular expressions and context-free grammars. Our approach adds little to no overhead to the token sequence generation process, and makes guided generation feasible in practice. An implementation is provided in the open source Python library Outlines.

We present an approach to pose object recognition as next token prediction. The idea is to apply a language decoder that auto-regressively predicts the text tokens from image embeddings to form labels. To ground this prediction process in auto-regression, we customize a non-causal attention mask for the decoder, incorporating two key features: modeling tokens from different labels to be independent, and treating image tokens as a prefix. This masking mechanism inspires an efficient method - one-shot sampling - to simultaneously sample tokens of multiple labels in parallel and rank generated labels by their probabilities during inference. To further enhance the efficiency, we propose a simple strategy to construct a compact decoder by simply discarding the intermediate blocks of a pretrained language model. This approach yields a decoder that matches the full model's performance while being notably more efficient. The code is available at https://github.com/kaiyuyue/nxtp

We study the text generation task under the approach of pre-trained language models (PLMs). Typically, an auto-regressive (AR) method is adopted for generating texts in a token-by-token manner. Despite many advantages of AR generation, it usually suffers from inefficient inference. Therefore, non-autoregressive (NAR) models are proposed to generate all target tokens simultaneously. However, NAR models usually generate texts of lower quality due to the absence of token dependency in the output text. In this paper, we propose ELMER: an efficient and effective PLM for NAR text generation to explicitly model the token dependency during NAR generation. By leveraging the early exit technique, ELMER enables the token generations at different layers, according to their prediction confidence (a more confident token will exit at a lower layer). Besides, we propose a novel pre-training objective, Layer Permutation Language Modeling, to pre-train ELMER by permuting the exit layer for each token in sequences. Experiments on three text generation tasks show that ELMER significantly outperforms NAR models and further narrows the performance gap with AR PLMs (\eg ELMER (29.92) vs BART (30.61) ROUGE-L in XSUM) while achieving over 10 times inference speedup.

Autoregressive large language models (LLMs) have made remarkable progress in various natural language generation tasks. However, they incur high computation cost and latency resulting from the autoregressive token-by-token generation. To address this issue, several approaches have been proposed to reduce computational cost using early-exit strategies. These strategies enable faster text generation using reduced computation without applying the full computation graph to each token. While existing token-level early exit methods show promising results for online inference, they cannot be readily applied for batch inferencing and Key-Value caching. This is because they have to wait until the last token in a batch exits before they can stop computing. This severely limits the practical application of such techniques. In this paper, we propose a simple and effective token-level early exit method, SkipDecode, designed to work seamlessly with batch inferencing and KV caching. It overcomes prior constraints by setting up a singular exit point for every token in a batch at each sequence position. It also guarantees a monotonic decrease in exit points, thereby eliminating the need to recompute KV Caches for preceding tokens. Rather than terminating computation prematurely as in prior works, our approach bypasses lower to middle layers, devoting most of the computational resources to upper layers, allowing later tokens to benefit from the compute expenditure by earlier tokens. Our experimental results show that SkipDecode can obtain 2x to 5x inference speedups with negligible regression across a variety of tasks. This is achieved using OPT models of 1.3 billion and 6.7 billion parameters, all the while being directly compatible with batching and KV caching optimization techniques.

In recent years, large language models (LLMs) have achieved state-of-the-art results in various biological sequence analysis tasks, such as sequence classification, structure prediction, and function prediction. Similar to advancements in AI for other scientific fields, deeper research into biological LLMs has begun to focus on using these models to rediscover important existing biological laws or uncover entirely new patterns in biological sequences.This study leverages GPT-like LLMs to utilize language transfer capabilities to rediscover the genetic code rules of the central dogma. In our experimental design, we transformed the central dogma into a binary classification problem of aligning DNA sequences with protein sequences, where positive examples are matching DNA and protein sequences, and negative examples are non-matching pairs.We first trained a GPT-2 model from scratch using a dataset comprising protein sequences, DNA sequences, and sequences from languages such as English and Chinese. Subsequently, we fine-tuned the model using the English similarity judgment dataset from PAWS-X. When tested on a dataset for DNA and protein sequence alignment judgment, the fine-tuned model achieved a classification accuracy of 76%. The study also analyzed factors contributing to this zero-shot capability, including model training stability and types of training data.This research demonstrates that LLMs can, through the transfer of natural language capabilities and solely relying on the analysis of sequences themselves, rediscover the central dogma without prior knowledge of it. This study opens a new door for AI-driven biological research.

Named Entity Recognition (NER) is a fundamental problem in natural language processing (NLP). However, the task of extracting longer entity spans (e.g., awards) from extended texts (e.g., homepages) is barely explored. Current NER methods predominantly fall into two categories: span-based methods and generation-based methods. Span-based methods require the enumeration of all possible token-pair spans, followed by classification on each span, resulting in substantial redundant computations and excessive GPU memory usage. In contrast, generation-based methods involve prompting or fine-tuning large language models (LLMs) to adapt to downstream NER tasks. However, these methods struggle with the accurate generation of longer spans and often incur significant time costs for effective fine-tuning. To address these challenges, this paper introduces a lightweight span-based NER method called SeNER, which incorporates a bidirectional arrow attention mechanism coupled with LogN-Scaling on the [CLS] token to embed long texts effectively, and comprises a novel bidirectional sliding-window plus-shaped attention (BiSPA) mechanism to reduce redundant candidate token-pair spans significantly and model interactions between token-pair spans simultaneously. Extensive experiments demonstrate that our method achieves state-of-the-art extraction accuracy on three long NER datasets and is capable of extracting entities from long texts in a GPU-memory-friendly manner. Code: https://github.com/THUDM/scholar-profiling/tree/main/sener

Predicting ATP-Protein Binding sites in genes is of great significance in the field of Biology and Medicine. The majority of research in this field has been conducted through time- and resource-intensive 'wet experiments' in laboratories. Over the years, researchers have been investigating computational methods computational methods to accomplish the same goals, utilising the strength of advanced Deep Learning and NLP algorithms. In this paper, we propose to develop methods to classify ATP-Protein binding sites. We conducted various experiments mainly using PSSMs and several word embeddings as features. We used 2D CNNs and LightGBM classifiers as our chief Deep Learning Algorithms. The MP3Vec and BERT models have also been subjected to testing in our study. The outcomes of our experiments demonstrated improvement over the state-of-the-art benchmarks.

Despite the widespread adoption of deep learning for machine translation, it is still expensive to develop high-quality translation models. In this work, we investigate the use of pre-trained models, such as T5 for Portuguese-English and English-Portuguese translation tasks using low-cost hardware. We explore the use of Portuguese and English pre-trained language models and propose an adaptation of the English tokenizer to represent Portuguese characters, such as diaeresis, acute and grave accents. We compare our models to the Google Translate API and MarianMT on a subset of the ParaCrawl dataset, as well as to the winning submission to the WMT19 Biomedical Translation Shared Task. We also describe our submission to the WMT20 Biomedical Translation Shared Task. Our results show that our models have a competitive performance to state-of-the-art models while being trained on modest hardware (a single 8GB gaming GPU for nine days). Our data, models and code are available at https://github.com/unicamp-dl/Lite-T5-Translation.

Tokenization, the division of input text into input tokens, is an often overlooked aspect of the large language model (LLM) pipeline and could be the source of useful or harmful inductive biases. Historically, LLMs have relied on byte pair encoding, without care to specific input domains. With the increased use of LLMs for reasoning, various number-specific tokenization schemes have been adopted, with popular models like LLaMa and PaLM opting for single-digit tokenization while GPT-3.5 and GPT-4 have separate tokens for each 1-, 2-, and 3-digit numbers. In this work, we study the effect this choice has on numerical reasoning through the use of arithmetic tasks. We consider left-to-right and right-to-left tokenization for GPT-3.5 and -4, finding that right-to-left tokenization (enforced by comma separating numbers at inference time) leads to largely improved performance. Furthermore, we find that model errors when using standard left-to-right tokenization follow stereotyped error patterns, suggesting that model computations are systematic rather than approximate. We show that the model is able to convert between tokenizations easily, thus allowing chain-of-thought-inspired approaches to recover performance on left-to-right tokenized inputs. We also find the gap between tokenization directions decreases when models are scaled, possibly indicating that larger models are better able to override this tokenization-dependent inductive bias. In summary, our work performs the first study of how number tokenization choices lead to differences in model performance on arithmetic tasks, accompanied by a thorough analysis of error patterns. We hope this work inspires practitioners to more carefully ablate number tokenization-related choices when working towards general models of numerical reasoning.

In this paper, we present Neural Phrase-based Machine Translation (NPMT). Our method explicitly models the phrase structures in output sequences using Sleep-WAke Networks (SWAN), a recently proposed segmentation-based sequence modeling method. To mitigate the monotonic alignment requirement of SWAN, we introduce a new layer to perform (soft) local reordering of input sequences. Different from existing neural machine translation (NMT) approaches, NPMT does not use attention-based decoding mechanisms. Instead, it directly outputs phrases in a sequential order and can decode in linear time. Our experiments show that NPMT achieves superior performances on IWSLT 2014 German-English/English-German and IWSLT 2015 English-Vietnamese machine translation tasks compared with strong NMT baselines. We also observe that our method produces meaningful phrases in output languages.

Tokenization is widely used in large language models because it significantly improves performance. However, tokenization imposes several disadvantages, such as performance biases, increased adversarial vulnerability, decreased character-level modeling performance, and increased modeling complexity. To address these disadvantages without sacrificing performance, we propose SpaceByte, a novel byte-level decoder architecture that closes the performance gap between byte-level and subword autoregressive language modeling. SpaceByte consists of a byte-level Transformer model, but with extra larger transformer blocks inserted in the middle of the layers. We find that performance is significantly improved by applying these larger blocks only after certain bytes, such as space characters, which typically denote word boundaries. Our experiments show that for a fixed training and inference compute budget, SpaceByte outperforms other byte-level architectures and roughly matches the performance of tokenized Transformer architectures.

Neural Machine Translation (NMT) is an end-to-end learning approach for automated translation, with the potential to overcome many of the weaknesses of conventional phrase-based translation systems. Unfortunately, NMT systems are known to be computationally expensive both in training and in translation inference. Also, most NMT systems have difficulty with rare words. These issues have hindered NMT's use in practical deployments and services, where both accuracy and speed are essential. In this work, we present GNMT, Google's Neural Machine Translation system, which attempts to address many of these issues. Our model consists of a deep LSTM network with 8 encoder and 8 decoder layers using attention and residual connections. To improve parallelism and therefore decrease training time, our attention mechanism connects the bottom layer of the decoder to the top layer of the encoder. To accelerate the final translation speed, we employ low-precision arithmetic during inference computations. To improve handling of rare words, we divide words into a limited set of common sub-word units ("wordpieces") for both input and output. This method provides a good balance between the flexibility of "character"-delimited models and the efficiency of "word"-delimited models, naturally handles translation of rare words, and ultimately improves the overall accuracy of the system. Our beam search technique employs a length-normalization procedure and uses a coverage penalty, which encourages generation of an output sentence that is most likely to cover all the words in the source sentence. On the WMT'14 English-to-French and English-to-German benchmarks, GNMT achieves competitive results to state-of-the-art. Using a human side-by-side evaluation on a set of isolated simple sentences, it reduces translation errors by an average of 60% compared to Google's phrase-based production system.

Underlying data distributions of natural language, programming code, and mathematical symbols vary vastly, presenting a complex challenge for large language models (LLMs) that strive to achieve high performance across all three domains simultaneously. Achieving a very high level of proficiency for an LLM within a specific domain often requires extensive training with relevant corpora, which is typically accompanied by a sacrifice in performance in other domains. In this paper, we propose to fuse models that are already highly-specialized directly. The proposed fusing framework, UltraFuser, consists of three distinct specialists that are already sufficiently trained on language, coding, and mathematics. A token-level gating mechanism is introduced to blend the specialists' outputs. A two-stage training strategy accompanied by balanced sampling is designed to ensure stability. To effectively train the fused model, we further construct a high-quality supervised instruction tuning dataset, UltraChat 2, which includes text, code, and mathematical content. This dataset comprises approximately 300,000 instructions and covers a wide range of topics in each domain. Experiments show that our model could simultaneously achieve mastery of the three crucial domains.

The relationship between language model tokenization and performance is an open area of research. Here, we investigate how different tokenization schemes impact number agreement in Spanish plurals. We find that morphologically-aligned tokenization performs similarly to other tokenization schemes, even when induced artificially for words that would not be tokenized that way during training. We then present exploratory analyses demonstrating that language model embeddings for different plural tokenizations have similar distributions along the embedding space axis that maximally distinguishes singular and plural nouns. Our results suggest that morphologically-aligned tokenization is a viable tokenization approach, and existing models already generalize some morphological patterns to new items. However, our results indicate that morphological tokenization is not strictly required for performance.

Introduction: The scientific publishing landscape is expanding rapidly, creating challenges for researchers to stay up-to-date with the evolution of the literature. Natural Language Processing (NLP) has emerged as a potent approach to automating knowledge extraction from this vast amount of publications and preprints. Tasks such as Named-Entity Recognition (NER) and Named-Entity Linking (NEL), in conjunction with context-dependent semantic interpretation, offer promising and complementary approaches to extracting structured information and revealing key concepts. Results: We present the SourceData-NLP dataset produced through the routine curation of papers during the publication process. A unique feature of this dataset is its emphasis on the annotation of bioentities in figure legends. We annotate eight classes of biomedical entities (small molecules, gene products, subcellular components, cell lines, cell types, tissues, organisms, and diseases), their role in the experimental design, and the nature of the experimental method as an additional class. SourceData-NLP contains more than 620,000 annotated biomedical entities, curated from 18,689 figures in 3,223 papers in molecular and cell biology. We illustrate the dataset's usefulness by assessing BioLinkBERT and PubmedBERT, two transformers-based models, fine-tuned on the SourceData-NLP dataset for NER. We also introduce a novel context-dependent semantic task that infers whether an entity is the target of a controlled intervention or the object of measurement. Conclusions: SourceData-NLP's scale highlights the value of integrating curation into publishing. Models trained with SourceData-NLP will furthermore enable the development of tools able to extract causal hypotheses from the literature and assemble them into knowledge graphs.

Publicly traded companies are required to submit periodic reports with eXtensive Business Reporting Language (XBRL) word-level tags. Manually tagging the reports is tedious and costly. We, therefore, introduce XBRL tagging as a new entity extraction task for the financial domain and release FiNER-139, a dataset of 1.1M sentences with gold XBRL tags. Unlike typical entity extraction datasets, FiNER-139 uses a much larger label set of 139 entity types. Most annotated tokens are numeric, with the correct tag per token depending mostly on context, rather than the token itself. We show that subword fragmentation of numeric expressions harms BERT's performance, allowing word-level BILSTMs to perform better. To improve BERT's performance, we propose two simple and effective solutions that replace numeric expressions with pseudo-tokens reflecting original token shapes and numeric magnitudes. We also experiment with FIN-BERT, an existing BERT model for the financial domain, and release our own BERT (SEC-BERT), pre-trained on financial filings, which performs best. Through data and error analysis, we finally identify possible limitations to inspire future work on XBRL tagging.

We present Eagle (RWKV-5) and Finch (RWKV-6), sequence models improving upon the RWKV (RWKV-4) architecture. Our architectural design advancements include multi-headed matrix-valued states and a dynamic recurrence mechanism that improve expressivity while maintaining the inference efficiency characteristics of RNNs. We introduce a new multilingual corpus with 1.12 trillion tokens and a fast tokenizer based on greedy matching for enhanced multilinguality. We trained four Eagle models, ranging from 0.46 to 7.5 billion parameters, and two Finch models with 1.6 and 3.1 billion parameters and find that they achieve competitive performance across a wide variety of benchmarks. We release all our models on HuggingFace under the Apache 2.0 license. Models at: https://huggingface.co/RWKV Training code at: https://github.com/RWKV/RWKV-LM Inference code at: https://github.com/RWKV/ChatRWKV Time-parallel training code at: https://github.com/RWKV/RWKV-infctx-trainer

Large Language Models (LLMs) have revolutionized natural language processing by unifying tasks into text generation, yet their large parameter sizes and autoregressive nature limit inference speed. SAM-Decoding addresses this by introducing a novel retrieval-based speculative decoding method that uses a suffix automaton for efficient and accurate draft generation. Unlike n-gram matching used by the existing method, SAM-Decoding finds the longest suffix match in generating text and text corpuss, achieving an average time complexity of O(1) per generation step. SAM-Decoding constructs static and dynamic suffix automatons for the text corpus and input prompts, respectively, enabling fast and precise draft generation. Meanwhile, it is designed as an approach that can be combined with existing methods, allowing SAM-Decoding to adaptively select a draft generation strategy based on the matching length, thus increasing the inference speed of the LLM. When combined with Token Recycling, evaluations show SAM-Decoding outperforms existing model-free methods, achieving a speedup of 2.27times over autoregressive decoding on Spec-Bench. When combined with EAGLE2, it reaches a speedup of 2.49times, surpassing all current approaches. Our code is available at https://github.com/hyx1999/SAM-Decoding.

Recent language models have shown impressive multilingual performance, even when not explicitly trained for it. Despite this, there are concerns about the quality of their outputs across different languages. In this paper, we show how disparity in the treatment of different languages arises at the tokenization stage, well before a model is even invoked. The same text translated into different languages can have drastically different tokenization lengths, with differences up to 15 times in some cases. These disparities persist even for tokenizers that are intentionally trained for multilingual support. Character-level and byte-level models also exhibit over 4 times the difference in the encoding length for some language pairs. This induces unfair treatment for some language communities in regard to the cost of accessing commercial language services, the processing time and latency, as well as the amount of content that can be provided as context to the models. Therefore, we make the case that we should train future language models using multilingually fair subword tokenizers.

Large Language Models (LLMs) have demonstrated remarkable performance in various tasks and gained significant attention. LLMs are also used for local sequence transduction tasks, including grammatical error correction (GEC) and formality style transfer, where most tokens in a source text are kept unchanged. However, the models that generate all target tokens in such tasks have a tendency to simply copy the input text as is, without making needed changes, because the difference between input and output texts is minimal in the training data. This is also inefficient because the computational cost grows quadratically with the target sequence length with Transformer. This paper proposes predicting edit spans for the source text for local sequence transduction tasks. Representing an edit span with a position of the source text and corrected tokens, we can reduce the length of the target sequence and the computational cost for inference. We apply instruction tuning for LLMs on the supervision data of edit spans. Experiments show that the proposed method achieves comparable performance to the baseline in four tasks, paraphrasing, formality style transfer, GEC, and text simplification, despite reducing the length of the target text by as small as 21%. Furthermore, we report that the task-specific fine-tuning with the proposed method achieved state-of-the-art performance in the four tasks.

It is well known that LLM-based systems are data-hungry. Recent LLM-based TTS works typically employ complex data processing pipelines to obtain high-quality training data. These sophisticated pipelines require excellent models at each stage (e.g., speech denoising, speech enhancement, speaker diarization, and punctuation models), which themselves demand high-quality training data and are rarely open-sourced. Even with state-of-the-art models, issues persist, such as incomplete background noise removal and misalignment between punctuation and actual speech pauses. Moreover, the stringent filtering strategies often retain only 10-30\% of the original data, significantly impeding data scaling efforts. In this work, we leverage a noise-robust audio tokenizer (S3Tokenizer) to design a simplified yet effective TTS data processing pipeline that maintains data quality while substantially reducing data acquisition costs, achieving a data retention rate of over 50\%. Beyond data scaling challenges, LLM-based TTS systems also incur higher deployment costs compared to conventional approaches. Current systems typically use LLMs solely for text-to-token generation, while requiring separate models (e.g., flow matching models) for token-to-waveform generation, which cannot be directly executed by LLM inference engines, further complicating deployment. To address these challenges, we eliminate redundant modules in both LLM and flow components, replacing the flow model backbone with an LLM architecture. Building upon this simplified flow backbone, we propose a unified architecture for both streaming and non-streaming inference, significantly reducing deployment costs. Finally, we explore the feasibility of unifying TTS and ASR tasks using the same data for training, thanks to the simplified pipeline and the S3Tokenizer that reduces the quality requirements for TTS training data.

Subword segmentation is widely used to address the open vocabulary problem in machine translation. The dominant approach to subword segmentation is Byte Pair Encoding (BPE), which keeps the most frequent words intact while splitting the rare ones into multiple tokens. While multiple segmentations are possible even with the same vocabulary, BPE splits words into unique sequences; this may prevent a model from better learning the compositionality of words and being robust to segmentation errors. So far, the only way to overcome this BPE imperfection, its deterministic nature, was to create another subword segmentation algorithm (Kudo, 2018). In contrast, we show that BPE itself incorporates the ability to produce multiple segmentations of the same word. We introduce BPE-dropout - simple and effective subword regularization method based on and compatible with conventional BPE. It stochastically corrupts the segmentation procedure of BPE, which leads to producing multiple segmentations within the same fixed BPE framework. Using BPE-dropout during training and the standard BPE during inference improves translation quality up to 3 BLEU compared to BPE and up to 0.9 BLEU compared to the previous subword regularization.

In the development of Large Language Models (LLMs), considerable attention has been given to the quality of training datasets. However, the role of tokenizers in the LLM training pipeline, particularly for multilingual models, has received less focus. The quality of tokenization can significantly impact a model's ability to handle diverse languages effectively. We introduce Qtok, a tool designed to assess tokenizer quality with a specific emphasis on their performance in multilingual contexts. Our research proposes a set of metrics for evaluating tokenizer quality, including measures of language coverage, token completeness, and distribution across languages and linguistic categories. Qtok applies these metrics to evaluate 13 distinct tokenizers from 58 publicly available models, analyzing their output across different linguistic contexts. Our analysis revealed significant variations in token distribution across languages and categories, highlighting potential biases and areas for improvement in current tokenization strategies. This research contributes to the field of tokenizer evaluation within multilingual LLM development by providing a systematic approach to assessing tokenizer quality. Our findings highlight the critical role of tokenization in multilingual LLM capability. The Qtok tool and our analysis methodology offer practical means for researchers to evaluate and improve tokenization strategies for multilingual applications. We offer a method to compare tokenizer quality across these metrics, which may be useful when selecting or adjusting tokenizers for specific multilingual LLM applications.

Accessing medical literature is difficult for laypeople as the content is written for specialists and contains medical jargon. Automated text simplification methods offer a potential means to address this issue. In this work, we propose a summarize-then-simplify two-stage strategy, which we call NapSS, identifying the relevant content to simplify while ensuring that the original narrative flow is preserved. In this approach, we first generate reference summaries via sentence matching between the original and the simplified abstracts. These summaries are then used to train an extractive summarizer, learning the most relevant content to be simplified. Then, to ensure the narrative consistency of the simplified text, we synthesize auxiliary narrative prompts combining key phrases derived from the syntactical analyses of the original text. Our model achieves results significantly better than the seq2seq baseline on an English medical corpus, yielding 3%~4% absolute improvements in terms of lexical similarity, and providing a further 1.1% improvement of SARI score when combined with the baseline. We also highlight shortcomings of existing evaluation methods, and introduce new metrics that take into account both lexical and high-level semantic similarity. A human evaluation conducted on a random sample of the test set further establishes the effectiveness of the proposed approach. Codes and models are released here: https://github.com/LuJunru/NapSS.

Extracting tables from documents is a crucial task in any document conversion pipeline. Recently, transformer-based models have demonstrated that table-structure can be recognized with impressive accuracy using Image-to-Markup-Sequence (Im2Seq) approaches. Taking only the image of a table, such models predict a sequence of tokens (e.g. in HTML, LaTeX) which represent the structure of the table. Since the token representation of the table structure has a significant impact on the accuracy and run-time performance of any Im2Seq model, we investigate in this paper how table-structure representation can be optimised. We propose a new, optimised table-structure language (OTSL) with a minimized vocabulary and specific rules. The benefits of OTSL are that it reduces the number of tokens to 5 (HTML needs 28+) and shortens the sequence length to half of HTML on average. Consequently, model accuracy improves significantly, inference time is halved compared to HTML-based models, and the predicted table structures are always syntactically correct. This in turn eliminates most post-processing needs.

Current speech large language models build upon discrete speech representations, which can be categorized into semantic tokens and acoustic tokens. However, existing speech tokens are not specifically designed for speech language modeling. To assess the suitability of speech tokens for building speech language models, we established the first benchmark, SLMTokBench. Our results indicate that neither semantic nor acoustic tokens are ideal for this purpose. Therefore, we propose SpeechTokenizer, a unified speech tokenizer for speech large language models. SpeechTokenizer adopts the Encoder-Decoder architecture with residual vector quantization (RVQ). Unifying semantic and acoustic tokens, SpeechTokenizer disentangles different aspects of speech information hierarchically across different RVQ layers. Furthermore, We construct a Unified Speech Language Model (USLM) leveraging SpeechTokenizer. Experiments show that SpeechTokenizer performs comparably to EnCodec in speech reconstruction and demonstrates strong performance on the SLMTokBench benchmark. Also, USLM outperforms VALL-E in zero-shot Text-to-Speech tasks. Code and models are available at https://github.com/ZhangXInFD/SpeechTokenizer/.

In traditional conversational intelligence from speech, a cascaded pipeline is used, involving tasks such as voice activity detection, diarization, transcription, and subsequent processing with different NLP models for tasks like semantic endpointing and named entity recognition (NER). Our paper introduces TokenVerse, a single Transducer-based model designed to handle multiple tasks. This is achieved by integrating task-specific tokens into the reference text during ASR model training, streamlining the inference and eliminating the need for separate NLP models. In addition to ASR, we conduct experiments on 3 different tasks: speaker change detection, endpointing, and NER. Our experiments on a public and a private dataset show that the proposed method improves ASR by up to 7.7% in relative WER while outperforming the cascaded pipeline approach in individual task performance. Our code is publicly available: https://github.com/idiap/tokenverse-unifying-speech-nlp

Large Language Models (LLMs) have revolutionized natural language processing, excelling in handling longer sequences. However, the inefficiency and redundancy in processing extended in-context tokens remain a challenge. Many attempts to address this rely on compressing tokens with smaller text encoders, yet we question whether text encoders are truly indispensable. Our journey leads to an unexpected discovery-a much smaller vision encoder, applied directly to sequences of text tokens, can rival text encoders on text tasks. When pre-trained on large amounts of data and transferred to multiple mid-sized or small text understanding benchmarks, VIST leads to comparable results with 16% fewer FLOPs and 50% less memory usage. We further uncover significant token redundancy and devise a frequency-based masking strategy to guide the focus of the visual encoder toward the most critical tokens. Interestingly, we observe the trained visual encoder performs like a summarizer, selectively ignoring less important words such as prepositions and conjunctions. This approach delivers remarkable results, outperforming traditional text encoder-based methods by 5.7% on average over benchmarks like TriviaQA, NQ, PopQA, TREF, SST2, and SST5, setting a new standard for token efficiency in LLMs.

As Large Language Models (LLMs) have made significant advancements across various tasks, such as question answering, translation, text summarization, and dialogue systems, the need for accuracy in information becomes crucial, especially for serious financial products serving billions of users like Alipay. To address this, Alipay has developed a Retrieval-Augmented Generation (RAG) system that grounds LLMs on the most accurate and up-to-date information. However, for a real-world product serving millions of users, the inference speed of LLMs becomes a critical factor compared to a mere experimental model. Hence, this paper presents a generic framework for accelerating the inference process, resulting in a substantial increase in speed and cost reduction for our RAG system, with lossless generation accuracy. In the traditional inference process, each token is generated sequentially by the LLM, leading to a time consumption proportional to the number of generated tokens. To enhance this process, our framework, named lookahead, introduces a multi-branch strategy. Instead of generating a single token at a time, we propose a Trie-based Retrieval (TR) process that enables the generation of multiple branches simultaneously, each of which is a sequence of tokens. Subsequently, for each branch, a Verification and Accept (VA) process is performed to identify the longest correct sub-sequence as the final output. Our strategy offers two distinct advantages: (1) it guarantees absolute correctness of the output, avoiding any approximation algorithms, and (2) the worst-case performance of our approach is equivalent to the conventional process. We conduct extensive experiments to demonstrate the significant improvements achieved by applying our inference acceleration framework. Code is avaliable: https://github.com/alipay/PainlessInferenceAcceleration.