LICENSE
MANIFEST.in
README.md
pyproject.toml
setup.py
TFBS_footprinting3.egg-info/PKG-INFO
TFBS_footprinting3.egg-info/SOURCES.txt
TFBS_footprinting3.egg-info/dependency_links.txt
TFBS_footprinting3.egg-info/entry_points.txt
TFBS_footprinting3.egg-info/requires.txt
TFBS_footprinting3.egg-info/top_level.txt
sample_analysis/TFBS_footprinter3.log
sample_analysis/jaspar_tf_ids_all.txt
sample_analysis/jaspar_tf_ids_selected.txt
sample_analysis/sample_csv.csv
sample_analysis/sample_ids.txt
tests/test_cas_pvalue.py
tests/test_hpc_empirical.py
tests/test_output_parquet.py
tests/test_pwm.py
tests/test_scoring_vectorized.py
tfbs_footprinter3/__init__.py
tfbs_footprinter3/alignment.py
tfbs_footprinter3/cli.py
tfbs_footprinter3/data_loader.py
tfbs_footprinter3/data_parsing.py
tfbs_footprinter3/ensembl.py
tfbs_footprinter3/io_utils.py
tfbs_footprinter3/output.py
tfbs_footprinter3/pipeline.py
tfbs_footprinter3/plotting.py
tfbs_footprinter3/pwm.py
tfbs_footprinter3/scoring.py
tfbs_footprinter3/tfbs_footprinter3.py
tfbs_footprinter3/translators.py
tfbs_footprinter3/data/JASPAR_2026_pwms.json
tfbs_footprinter3/data/pwms.json
tfbs_footprinter3/data/species_nt_freq.json