<gh_stars>0
# -*- coding: utf-8 -*-

"""Top level for preprocess."""

from .pipeline import (
    align_sequences,
    call_alleles,
    collapse_umis,
    convert_fastqs_to_unmapped_bam,
    error_correct_cellbcs_to_whitelist,
    error_correct_intbcs_to_whitelist,
    error_correct_umis,
    filter_bam,
    resolve_umi_sequence,
    filter_molecule_table,
    call_lineage_groups,
)
from .utilities import (
    compute_empirical_indel_priors,
    convert_alleletable_to_character_matrix,
    convert_alleletable_to_lineage_profile,
    convert_lineage_profile_to_character_matrix,
    filter_cells,
    filter_umis,
)
from .setup_utilities import setup


__all__ = [
    "align_sequences",
    "call_alleles",
    "collapse_umis",
    "convert_fastqs_to_unmapped_bam",
    "error_correct_cellbcs_to_whitelist",
    "error_correct_intbcs_to_whitelist",
    "error_correct_umis",
    "filter_bam",
    "resolve_umi_sequence",
    "filter_molecule_table",
    "call_lineage_groups",
    "compute_empirical_indel_priors",
    "convert_alleletable_to_character_matrix",
    "convert_alleletable_to_lineage_profile",
    "convert_lineage_profile_to_character_matrix",
    "filter_cells",
    "filter_umis",
    "setup",
]

# -*- coding: utf-8 -*-

"""Top level for preprocess."""

from .pipeline import (
    align_sequences,
    call_alleles,
    collapse_umis,
    convert_fastqs_to_unmapped_bam,
    error_correct_cellbcs_to_whitelist,
    error_correct_intbcs_to_whitelist,
    error_correct_umis,
    filter_bam,
    resolve_umi_sequence,
    filter_molecule_table,
    call_lineage_groups,
)
from .utilities import (
    compute_empirical_indel_priors,
    convert_alleletable_to_character_matrix,
    convert_alleletable_to_lineage_profile,
    convert_lineage_profile_to_character_matrix,
    filter_cells,
    filter_umis,
)
from .setup_utilities import setup


__all__ = [
    "align_sequences",
    "call_alleles",
    "collapse_umis",
    "convert_fastqs_to_unmapped_bam",
    "error_correct_cellbcs_to_whitelist",
    "error_correct_intbcs_to_whitelist",
    "error_correct_umis",
    "filter_bam",
    "resolve_umi_sequence",
    "filter_molecule_table",
    "call_lineage_groups",
    "compute_empirical_indel_priors",
    "convert_alleletable_to_character_matrix",
    "convert_alleletable_to_lineage_profile",
    "convert_lineage_profile_to_character_matrix",
    "filter_cells",
    "filter_umis",
    "setup",
]
# -*- coding: utf-8 -*- Top level for preprocess.