LICENSE
README.md
pyproject.toml
src/pav3/__init__.py
src/pav3/__main__.py
src/pav3/anno.py
src/pav3/const.py
src/pav3/inv.py
src/pav3/io.py
src/pav3/kde.py
src/pav3/params.py
src/pav3/pipeline.py
src/pav3/region.py
src/pav3/schema.py
src/pav3/seq.py
src/pav3/util.py
src/pav3.egg-info/PKG-INFO
src/pav3.egg-info/SOURCES.txt
src/pav3.egg-info/dependency_links.txt
src/pav3.egg-info/entry_points.txt
src/pav3.egg-info/requires.txt
src/pav3.egg-info/top_level.txt
src/pav3/align/__init__.py
src/pav3/align/features.py
src/pav3/align/lift.py
src/pav3/align/op.py
src/pav3/align/records.py
src/pav3/align/score.py
src/pav3/align/tables.py
src/pav3/align/trim.py
src/pav3/align/lcmodel/__init__.py
src/pav3/align/lcmodel/_lcmodel.py
src/pav3/align/lcmodel/_lcmodel_logistic.py
src/pav3/align/lcmodel/_lcmodel_null.py
src/pav3/align/lcmodel/_util.py
src/pav3/call/__init__.py
src/pav3/call/expr.py
src/pav3/call/integrate.py
src/pav3/call/intra.py
src/pav3/call/util.py
src/pav3/cli/__init__.py
src/pav3/cli/_cli.py
src/pav3/cli/_common_opt.py
src/pav3/cli/_subcommand_call.py
src/pav3/cli/_subcommand_license.py
src/pav3/data/lcmodel/default/model.json
src/pav3/data/lcmodel/human_95_80/model.json
src/pav3/data/lcmodel/human_95_80/model_info.tar.gz
src/pav3/data/lcmodel/human_95_80/weights.npz
src/pav3/data/lcmodel/human_98_80/model.json
src/pav3/data/lcmodel/human_98_80/model_info.tar.gz
src/pav3/data/lcmodel/human_98_80/weights.npz
src/pav3/data/lcmodel/prim_90_50/model.json
src/pav3/data/lcmodel/prim_90_50/model_info.tar.gz
src/pav3/data/lcmodel/prim_90_50/weights.npz
src/pav3/data/lcmodel/primdiv_85_50/model.json
src/pav3/data/lcmodel/primdiv_85_50/model_info.tar.gz
src/pav3/data/lcmodel/primdiv_85_50/weights.npz
src/pav3/data/workflow/Snakefile
src/pav3/data/workflow/profiles/pav_default/config.yaml
src/pav3/data/workflow/rules/align.smk
src/pav3/data/workflow/rules/call.smk
src/pav3/data/workflow/rules/data.smk
src/pav3/data/workflow/rules/pipeline.smk
src/pav3/dev/__init__.py
src/pav3/dev/imports.py
src/pav3/dev/sm.py
src/pav3/dev/tables.py
src/pav3/lgsv/__init__.py
src/pav3/lgsv/call.py
src/pav3/lgsv/chain.py
src/pav3/lgsv/interval.py
src/pav3/lgsv/io.py
src/pav3/lgsv/region_kde.py
src/pav3/lgsv/resources.py
src/pav3/lgsv/struct.py
src/pav3/lgsv/variant.py