Daily Papers

Researchers use figures to communicate rich, complex information in scientific papers. The captions of these figures are critical to conveying effective messages. However, low-quality figure captions commonly occur in scientific articles and may decrease understanding. In this paper, we propose an end-to-end neural framework to automatically generate informative, high-quality captions for scientific figures. To this end, we introduce SCICAP, a large-scale figure-caption dataset based on computer science arXiv papers published between 2010 and 2020. After pre-processing - including figure-type classification, sub-figure identification, text normalization, and caption text selection - SCICAP contained more than two million figures extracted from over 290,000 papers. We then established baseline models that caption graph plots, the dominant (19.2%) figure type. The experimental results showed both opportunities and steep challenges of generating captions for scientific figures.

Creating high-quality scientific figures can be time-consuming and challenging, even though sketching ideas on paper is relatively easy. Furthermore, recreating existing figures that are not stored in formats preserving semantic information is equally complex. To tackle this problem, we introduce DeTikZify, a novel multimodal language model that automatically synthesizes scientific figures as semantics-preserving TikZ graphics programs based on sketches and existing figures. To achieve this, we create three new datasets: DaTikZv2, the largest TikZ dataset to date, containing over 360k human-created TikZ graphics; SketchFig, a dataset that pairs hand-drawn sketches with their corresponding scientific figures; and SciCap++, a collection of diverse scientific figures and associated metadata. We train DeTikZify on SciCap++ and DaTikZv2, along with synthetically generated sketches learned from SketchFig. We also introduce an MCTS-based inference algorithm that enables DeTikZify to iteratively refine its outputs without the need for additional training. Through both automatic and human evaluation, we demonstrate that DeTikZify outperforms commercial Claude 3 and GPT-4V in synthesizing TikZ programs, with the MCTS algorithm effectively boosting its performance. We make our code, models, and datasets publicly available.

Most existing large-scale academic search engines are built to retrieve text-based information. However, there are no large-scale retrieval services for scientific figures and tables. One challenge for such services is understanding scientific figures' semantics, such as their types and purposes. A key obstacle is the need for datasets containing annotated scientific figures and tables, which can then be used for classification, question-answering, and auto-captioning. Here, we develop a pipeline that extracts figures and tables from the scientific literature and a deep-learning-based framework that classifies scientific figures using visual features. Using this pipeline, we built the first large-scale automatically annotated corpus, ACL-Fig, consisting of 112,052 scientific figures extracted from ~56K research papers in the ACL Anthology. The ACL-Fig-Pilot dataset contains 1,671 manually labeled scientific figures belonging to 19 categories. The dataset is accessible at https://huggingface.co/datasets/citeseerx/ACL-fig under a CC BY-NC license.

There is growing interest in systems that generate captions for scientific figures. However, assessing these systems output poses a significant challenge. Human evaluation requires academic expertise and is costly, while automatic evaluation depends on often low-quality author-written captions. This paper investigates using large language models (LLMs) as a cost-effective, reference-free method for evaluating figure captions. We first constructed SCICAP-EVAL, a human evaluation dataset that contains human judgments for 3,600 scientific figure captions, both original and machine-made, for 600 arXiv figures. We then prompted LLMs like GPT-4 and GPT-3 to score (1-6) each caption based on its potential to aid reader understanding, given relevant context such as figure-mentioning paragraphs. Results show that GPT-4, used as a zero-shot evaluator, outperformed all other models and even surpassed assessments made by Computer Science and Informatics undergraduates, achieving a Kendall correlation score of 0.401 with Ph.D. students rankings

Generating bitmap graphics from text has gained considerable attention, yet for scientific figures, vector graphics are often preferred. Given that vector graphics are typically encoded using low-level graphics primitives, generating them directly is difficult. To address this, we propose the use of TikZ, a well-known abstract graphics language that can be compiled to vector graphics, as an intermediate representation of scientific figures. TikZ offers human-oriented, high-level commands, thereby facilitating conditional language modeling with any large language model. To this end, we introduce DaTikZ the first large-scale TikZ dataset, consisting of 120k TikZ drawings aligned with captions. We fine-tune LLaMA on DaTikZ, as well as our new model CLiMA, which augments LLaMA with multimodal CLIP embeddings. In both human and automatic evaluation, CLiMA and LLaMA outperform commercial GPT-4 and Claude 2 in terms of similarity to human-created figures, with CLiMA additionally improving text-image alignment. Our detailed analysis shows that all models generalize well and are not susceptible to memorization. GPT-4 and Claude 2, however, tend to generate more simplistic figures compared to both humans and our models. We make our framework, AutomaTikZ, along with model weights and datasets, publicly available.

The generative modeling landscape has experienced tremendous growth in recent years, particularly in generating natural images and art. Recent techniques have shown impressive potential in creating complex visual compositions while delivering impressive realism and quality. However, state-of-the-art methods have been focusing on the narrow domain of natural images, while other distributions remain unexplored. In this paper, we introduce the problem of text-to-figure generation, that is creating scientific figures of papers from text descriptions. We present FigGen, a diffusion-based approach for text-to-figure as well as the main challenges of the proposed task. Code and models are available at https://github.com/joanrod/figure-diffusion

The rapid advancement of Large Language Models (LLMs) and Large Multimodal Models (LMMs) has heightened the demand for AI-based scientific assistants capable of understanding scientific articles and figures. Despite progress, there remains a significant gap in evaluating models' comprehension of professional, graduate-level, and even PhD-level scientific content. Current datasets and benchmarks primarily focus on relatively simple scientific tasks and figures, lacking comprehensive assessments across diverse advanced scientific disciplines. To bridge this gap, we collected a multimodal, multidisciplinary dataset from open-access scientific articles published in Nature Communications journals. This dataset spans 72 scientific disciplines, ensuring both diversity and quality. We created benchmarks with various tasks and settings to comprehensively evaluate LMMs' capabilities in understanding scientific figures and content. Our evaluation revealed that these tasks are highly challenging: many open-source models struggled significantly, and even GPT-4V and GPT-4o faced difficulties. We also explored using our dataset as training resources by constructing visual instruction-following data, enabling the 7B LLaVA model to achieve performance comparable to GPT-4V/o on our benchmark. Additionally, we investigated the use of our interleaved article texts and figure images for pre-training LMMs, resulting in improvements on the material generation task. The source dataset, including articles, figures, constructed benchmarks, and visual instruction-following data, is open-sourced.

Large vision-language models (LVLMs), exemplified by GPT-4V, excel across diverse tasks involving concrete images from natural scenes. However, their ability to interpret abstract figures, such as geometry shapes and scientific plots, remains limited due to a scarcity of training datasets in scientific domains. To fill this gap, we introduce Multimodal ArXiv, consisting of ArXivCap and ArXivQA, for enhancing LVLMs scientific comprehension. ArXivCap is a figure-caption dataset comprising 6.4M images and 3.9M captions sourced from 572K ArXiv papers spanning various scientific domains. Drawing from ArXivCap, we introduce ArXivQA, a question-answering dataset generated by prompting GPT-4V based on scientific figures. ArXivQA greatly enhances LVLMs' mathematical reasoning capabilities, achieving a 10.4% absolute accuracy gain on a multimodal mathematical reasoning benchmark. Furthermore, employing ArXivCap, we devise four vision-to-text tasks for benchmarking LVLMs. Evaluation results with state-of-the-art LVLMs underscore their struggle with the nuanced semantics of academic figures, with domain-specific training yielding substantial performance gains. Our error analysis uncovers misinterpretations of visual context, recognition errors, and the production of overly simplified captions by current LVLMs, shedding light on future improvements.

With the advent of large multimodal language models, science is now at a threshold of an AI-based technological transformation. Recently, a plethora of new AI models and tools has been proposed, promising to empower researchers and academics worldwide to conduct their research more effectively and efficiently. This includes all aspects of the research cycle, especially (1) searching for relevant literature; (2) generating research ideas and conducting experimentation; generating (3) text-based and (4) multimodal content (e.g., scientific figures and diagrams); and (5) AI-based automatic peer review. In this survey, we provide an in-depth overview over these exciting recent developments, which promise to fundamentally alter the scientific research process for good. Our survey covers the five aspects outlined above, indicating relevant datasets, methods and results (including evaluation) as well as limitations and scope for future research. Ethical concerns regarding shortcomings of these tools and potential for misuse (fake science, plagiarism, harms to research integrity) take a particularly prominent place in our discussion. We hope that our survey will not only become a reference guide for newcomers to the field but also a catalyst for new AI-based initiatives in the area of "AI4Science".

Errors in understanding visual information in images (i.e., visual perception errors) remain a major source of mistakes in Large Vision Language Models (LVLMs). While further analysis is essential, there is a deficiency in datasets for evaluating the visual perception of LVLMs. In this work, we introduce VisOnlyQA, a new dataset designed to directly evaluate the visual perception capabilities of LVLMs on questions about geometric and numerical information in scientific figures. Our dataset enables us to analyze the visual perception of LVLMs for fine-grained visual information, independent of other capabilities such as reasoning. The evaluation set of VisOnlyQA includes 1,200 multiple-choice questions in 12 tasks on four categories of figures. We also provide synthetic training data consisting of 70k instances. Our experiments on VisOnlyQA highlight the following findings: (i) 20 LVLMs we evaluate, including GPT-4o and Gemini 1.5 Pro, work poorly on the visual perception tasks in VisOnlyQA, while human performance is nearly perfect. (ii) Fine-tuning on synthetic training data demonstrates the potential for enhancing the visual perception of LVLMs, but observed improvements are limited to certain tasks and specific models. (iii) Stronger language models improve the visual perception of LVLMs. In summary, our experiments suggest that both training data and model architectures should be improved to enhance the visual perception capabilities of LVLMs. The datasets, code, and model responses are provided at https://github.com/psunlpgroup/VisOnlyQA.

We introduce FigureQA, a visual reasoning corpus of over one million question-answer pairs grounded in over 100,000 images. The images are synthetic, scientific-style figures from five classes: line plots, dot-line plots, vertical and horizontal bar graphs, and pie charts. We formulate our reasoning task by generating questions from 15 templates; questions concern various relationships between plot elements and examine characteristics like the maximum, the minimum, area-under-the-curve, smoothness, and intersection. To resolve, such questions often require reference to multiple plot elements and synthesis of information distributed spatially throughout a figure. To facilitate the training of machine learning systems, the corpus also includes side data that can be used to formulate auxiliary objectives. In particular, we provide the numerical data used to generate each figure as well as bounding-box annotations for all plot elements. We study the proposed visual reasoning task by training several models, including the recently proposed Relation Network as a strong baseline. Preliminary results indicate that the task poses a significant machine learning challenge. We envision FigureQA as a first step towards developing models that can intuitively recognize patterns from visual representations of data.

Understanding the relationship between figures and text is key to scientific document understanding. Medical figures in particular are quite complex, often consisting of several subfigures (75% of figures in our dataset), with detailed text describing their content. Previous work studying figures in scientific papers focused on classifying figure content rather than understanding how images relate to the text. To address challenges in figure retrieval and figure-to-text alignment, we introduce MedICaT, a dataset of medical images in context. MedICaT consists of 217K images from 131K open access biomedical papers, and includes captions, inline references for 74% of figures, and manually annotated subfigures and subcaptions for a subset of figures. Using MedICaT, we introduce the task of subfigure to subcaption alignment in compound figures and demonstrate the utility of inline references in image-text matching. Our data and code can be accessed at https://github.com/allenai/medicat.

Scientific literature is typically dense, requiring significant background knowledge and deep comprehension for effective engagement. We introduce SciDQA, a new dataset for reading comprehension that challenges LLMs for a deep understanding of scientific articles, consisting of 2,937 QA pairs. Unlike other scientific QA datasets, SciDQA sources questions from peer reviews by domain experts and answers by paper authors, ensuring a thorough examination of the literature. We enhance the dataset's quality through a process that carefully filters out lower quality questions, decontextualizes the content, tracks the source document across different versions, and incorporates a bibliography for multi-document question-answering. Questions in SciDQA necessitate reasoning across figures, tables, equations, appendices, and supplementary materials, and require multi-document reasoning. We evaluate several open-source and proprietary LLMs across various configurations to explore their capabilities in generating relevant and factual responses. Our comprehensive evaluation, based on metrics for surface-level similarity and LLM judgements, highlights notable performance discrepancies. SciDQA represents a rigorously curated, naturally derived scientific QA dataset, designed to facilitate research on complex scientific text understanding.

Large multimodal models (LMMs) have proven flexible and generalisable across many tasks and fields. Although they have strong potential to aid scientific research, their capabilities in this domain are not well characterised. A key aspect of scientific research is the ability to understand and interpret figures, which serve as a rich, compressed source of complex information. In this work, we present SciFIBench, a scientific figure interpretation benchmark. Our main benchmark consists of a 1000-question gold set of multiple-choice questions split between two tasks across 12 categories. The questions are curated from CS arXiv paper figures and captions, using adversarial filtering to find hard negatives and human verification for quality control. We evaluate 26 LMMs on SciFIBench, finding it to be a challenging benchmark. Finally, we investigate the alignment and reasoning faithfulness of the LMMs on augmented question sets from our benchmark. We release SciFIBench to encourage progress in this domain.

Multi-modal information retrieval (MMIR) is a rapidly evolving field, where significant progress, particularly in image-text pairing, has been made through advanced representation learning and cross-modality alignment research. However, current benchmarks for evaluating MMIR performance in image-text pairing within the scientific domain show a notable gap, where chart and table images described in scholarly language usually do not play a significant role. To bridge this gap, we develop a specialised scientific MMIR (SciMMIR) benchmark by leveraging open-access paper collections to extract data relevant to the scientific domain. This benchmark comprises 530K meticulously curated image-text pairs, extracted from figures and tables with detailed captions in scientific documents. We further annotate the image-text pairs with two-level subset-subcategory hierarchy annotations to facilitate a more comprehensive evaluation of the baselines. We conducted zero-shot and fine-tuning evaluations on prominent multi-modal image-captioning and visual language models, such as CLIP and BLIP. Our analysis offers critical insights for MMIR in the scientific domain, including the impact of pre-training and fine-tuning settings and the influence of the visual and textual encoders. All our data and checkpoints are publicly available at https://github.com/Wusiwei0410/SciMMIR.

Recently, the strong text creation ability of Large Language Models(LLMs) has given rise to many tools for assisting paper reading or even writing. However, the weak diagram analysis abilities of LLMs or Multimodal LLMs greatly limit their application scenarios, especially for scientific academic paper writing. In this work, towards a more versatile copilot for academic paper writing, we mainly focus on strengthening the multi-modal diagram analysis ability of Multimodal LLMs. By parsing Latex source files of high-quality papers, we carefully build a multi-modal diagram understanding dataset M-Paper. By aligning diagrams in the paper with related paragraphs, we construct professional diagram analysis samples for training and evaluation. M-Paper is the first dataset to support joint comprehension of multiple scientific diagrams, including figures and tables in the format of images or Latex codes. Besides, to better align the copilot with the user's intention, we introduce the `outline' as the control signal, which could be directly given by the user or revised based on auto-generated ones. Comprehensive experiments with a state-of-the-art Mumtimodal LLM demonstrate that training on our dataset shows stronger scientific diagram understanding performance, including diagram captioning, diagram analysis, and outline recommendation. The dataset, code, and model are available at https://github.com/X-PLUG/mPLUG-DocOwl/tree/main/PaperOwl.

Seeking answers to questions within long scientific research articles is a crucial area of study that aids readers in quickly addressing their inquiries. However, existing question-answering (QA) datasets based on scientific papers are limited in scale and focus solely on textual content. To address this limitation, we introduce SPIQA (Scientific Paper Image Question Answering), the first large-scale QA dataset specifically designed to interpret complex figures and tables within the context of scientific research articles across various domains of computer science. Leveraging the breadth of expertise and ability of multimodal large language models (MLLMs) to understand figures, we employ automatic and manual curation to create the dataset. We craft an information-seeking task involving multiple images that cover a wide variety of plots, charts, tables, schematic diagrams, and result visualizations. SPIQA comprises 270K questions divided into training, validation, and three different evaluation splits. Through extensive experiments with 12 prominent foundational models, we evaluate the ability of current multimodal systems to comprehend the nuanced aspects of research articles. Additionally, we propose a Chain-of-Thought (CoT) evaluation strategy with in-context retrieval that allows fine-grained, step-by-step assessment and improves model performance. We further explore the upper bounds of performance enhancement with additional textual information, highlighting its promising potential for future research and the dataset's impact on revolutionizing how we interact with scientific literature.

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.

Generating accurate and concise textual summaries from multimodal documents is challenging, especially when dealing with visually complex content like scientific posters. We introduce PosterSum, a novel benchmark to advance the development of vision-language models that can understand and summarize scientific posters into research paper abstracts. Our dataset contains 16,305 conference posters paired with their corresponding abstracts as summaries. Each poster is provided in image format and presents diverse visual understanding challenges, such as complex layouts, dense text regions, tables, and figures. We benchmark state-of-the-art Multimodal Large Language Models (MLLMs) on PosterSum and demonstrate that they struggle to accurately interpret and summarize scientific posters. We propose Segment & Summarize, a hierarchical method that outperforms current MLLMs on automated metrics, achieving a 3.14% gain in ROUGE-L. This will serve as a starting point for future research on poster summarization.

The automatic analysis of chemical literature has immense potential to accelerate the discovery of new materials and drugs. Much of the critical information in patent documents and scientific articles is contained in figures, depicting the molecule structures. However, automatically parsing the exact chemical structure is a formidable challenge, due to the amount of detailed information, the diversity of drawing styles, and the need for training data. In this work, we introduce MolGrapher to recognize chemical structures visually. First, a deep keypoint detector detects the atoms. Second, we treat all candidate atoms and bonds as nodes and put them in a graph. This construct allows a natural graph representation of the molecule. Last, we classify atom and bond nodes in the graph with a Graph Neural Network. To address the lack of real training data, we propose a synthetic data generation pipeline producing diverse and realistic results. In addition, we introduce a large-scale benchmark of annotated real molecule images, USPTO-30K, to spur research on this critical topic. Extensive experiments on five datasets show that our approach significantly outperforms classical and learning-based methods in most settings. Code, models, and datasets are available.

We introduce EXAMS-V, a new challenging multi-discipline multimodal multilingual exam benchmark for evaluating vision language models. It consists of 20,932 multiple-choice questions across 20 school disciplines covering natural science, social science, and other miscellaneous studies, e.g., religion, fine arts, business, etc. EXAMS-V includes a variety of multimodal features such as text, images, tables, figures, diagrams, maps, scientific symbols, and equations. The questions come in 11 languages from 7 language families. Unlike existing benchmarks, EXAMS-V is uniquely curated by gathering school exam questions from various countries, with a variety of education systems. This distinctive approach calls for intricate reasoning across diverse languages and relies on region-specific knowledge. Solving the problems in the dataset requires advanced perception and joint reasoning over the text and the visual content of the image. Our evaluation results demonstrate that this is a challenging dataset, which is difficult even for advanced vision-text models such as GPT-4V and Gemini; this underscores the inherent complexity of the dataset and its significance as a future benchmark.

Scientific figure captioning is a complex task that requires generating contextually appropriate descriptions of visual content. However, existing methods often fall short by utilizing incomplete information, treating the task solely as either an image-to-text or text summarization problem. This limitation hinders the generation of high-quality captions that fully capture the necessary details. Moreover, existing data sourced from arXiv papers contain low-quality captions, posing significant challenges for training large language models (LLMs). In this paper, we introduce a framework called Multi-LLM Collaborative Figure Caption Generation (MLBCAP) to address these challenges by leveraging specialized LLMs for distinct sub-tasks. Our approach unfolds in three key modules: (Quality Assessment) We utilize multimodal LLMs to assess the quality of training data, enabling the filtration of low-quality captions. (Diverse Caption Generation) We then employ a strategy of fine-tuning/prompting multiple LLMs on the captioning task to generate candidate captions. (Judgment) Lastly, we prompt a prominent LLM to select the highest quality caption from the candidates, followed by refining any remaining inaccuracies. Human evaluations demonstrate that informative captions produced by our approach rank better than human-written captions, highlighting its effectiveness. Our code is available at https://github.com/teamreboott/MLBCAP