MANIFEST.in
README.rst
setup.cfg
setup.py
tox.ini
src/__init__.py
src/longbow/__init__.py
src/longbow/__main__.py
src/longbow/meta.py
src/longbow/annotate/__init__.py
src/longbow/annotate/command.py
src/longbow/convert/__init__.py
src/longbow/convert/command.py
src/longbow/correct/__init__.py
src/longbow/correct/command.py
src/longbow/demultiplex/__init__.py
src/longbow/demultiplex/command.py
src/longbow/extract/__init__.py
src/longbow/extract/command.py
src/longbow/filter/__init__.py
src/longbow/filter/command.py
src/longbow/inspect/__init__.py
src/longbow/inspect/command.py
src/longbow/model/__init__.py
src/longbow/model/command.py
src/longbow/pad/__init__.py
src/longbow/pad/command.py
src/longbow/peek/__init__.py
src/longbow/peek/command.py
src/longbow/scsplit/__init__.py
src/longbow/scsplit/command.py
src/longbow/segment/__init__.py
src/longbow/segment/command.py
src/longbow/sift/__init__.py
src/longbow/sift/command.py
src/longbow/stats/__init__.py
src/longbow/stats/command.py
src/longbow/tagfix/__init__.py
src/longbow/tagfix/command.py
src/longbow/train/__init__.py
src/longbow/train/command.py
src/longbow/utils/bam_utils.py
src/longbow/utils/barcode_utils.py
src/longbow/utils/cli_utils.py
src/longbow/utils/constants.py
src/longbow/utils/model.py
src/longbow/utils/plot_utils.py
src/maslongbow.egg-info/PKG-INFO
src/maslongbow.egg-info/SOURCES.txt
src/maslongbow.egg-info/dependency_links.txt
src/maslongbow.egg-info/entry_points.txt
src/maslongbow.egg-info/requires.txt
src/maslongbow.egg-info/top_level.txt
tests/__init__.py
tests/utils.py
tests/acceptance/__init__.py
tests/integration/__init__.py
tests/integration/test_annotate.py
tests/integration/test_convert.py
tests/integration/test_correct.py
tests/integration/test_demultiplex.py
tests/integration/test_extract.py
tests/integration/test_filter.py
tests/integration/test_peek.py
tests/integration/test_segment.py
tests/integration/test_tagfix.py
tests/test_data/mas10_test_input.bam
tests/test_data/mas10_test_input.bam.pbi
tests/test_data/mas10_test_input.read_names.txt
tests/test_data/mas15_test_input.bam
tests/test_data/mas15_test_input.bam.pbi
tests/test_data/mas15_test_input.read_names.txt
tests/test_data/mas_15_bulk_10x5p_single_internal.bam
tests/test_data/annotate/mas10v2_expected.bam
tests/test_data/annotate/mas15v2_expected.bam
tests/test_data/correct/barcode_allow_list.txt
tests/test_data/correct/barcode_freq_list.tsv
tests/test_data/correct/correct_expected_corrected_data.sam
tests/test_data/correct/correct_expected_uncorrected_data.sam
tests/test_data/correct/correct_test_data.sam
tests/test_data/models/10x_sc_10x5p_single_none.json
tests/test_data/models/isoseq_1_sc_10x5p_single_none.json
tests/test_data/models/mas10.json
tests/test_data/models/mas10threeP.json
tests/test_data/models/mas10v2.json
tests/test_data/models/mas15.json
tests/test_data/models/mas15BulkWithIndices.json
tests/test_data/models/mas15teloprimev2.json
tests/test_data/models/mas15threeP.json
tests/test_data/models/mas15v2.json
tests/test_data/models/mas8prototype.json
tests/test_data/models/mas8prototypeV2.json
tests/test_data/models/mas_10_sc_10x5p_single_none.json
tests/test_data/models/mas_15_bulk_10x5p_single_internal.json
tests/test_data/models/mas_15_bulk_teloprimeV2_single_none.json
tests/test_data/models/mas_15_sc_10x3p_single_none.json
tests/test_data/models/mas_15_sc_10x5p_single_none.json
tests/test_data/models/mas_15_spatial_slide-seq_single_none.json
tests/test_data/models/scRNA_10x5p.json
tests/test_data/models/slide-seq.json
tests/test_data/models/slide-seqV2.json
tests/test_data/resources/SIRV_Library.fasta
tests/test_data/resources/SIRV_Library.fasta.fai
tests/test_data/resources/SIRV_Library.gff3
tests/test_data/segment/mas_10_sc_10x5p_single_none.expected.bam
tests/test_data/segment/mas_15_bulk_10x5p_single_internal.expected.bam
tests/test_data/segment/mas_15_sc_10x5p_single_none.expected.bam
tests/test_data/tagfix/tagfix_test_data.expected.sam
tests/test_data/tagfix/tagfix_test_data.sam
tests/unit/__init__.py
tests/unit/test_bam_utils.py
tests/unit/test_model.py