LICENSE
MANIFEST.in
README.md
pyproject.toml
PGAP2.egg-info/PKG-INFO
PGAP2.egg-info/SOURCES.txt
PGAP2.egg-info/dependency_links.txt
PGAP2.egg-info/entry_points.txt
PGAP2.egg-info/requires.txt
PGAP2.egg-info/top_level.txt
pgap2/__init__.py
pgap2/main.py
pgap2/cli/__init__.py
pgap2/cli/partition.py
pgap2/cli/partition_add.py
pgap2/cli/partition_merge.py
pgap2/cli/partition_minus.py
pgap2/cli/postprocess.py
pgap2/cli/preprocess.py
pgap2/dependencies/draw_post_profile.r
pgap2/dependencies/draw_post_stat.r
pgap2/dependencies/draw_prep.r
pgap2/dependencies/maskrc-svg.py
pgap2/dependencies/run_fastbaps
pgap2/lib/__init__.py
pgap2/lib/basic.py
pgap2/lib/panclust.py
pgap2/lib/pangenome.py
pgap2/lib/pangp.py
pgap2/lib/phylogeny.py
pgap2/lib/pklcheck.py
pgap2/lib/species.py
pgap2/lib/strain.py
pgap2/lib/tree.py
pgap2/postprocess/__init__.py
pgap2/postprocess/baps.py
pgap2/postprocess/graph.py
pgap2/postprocess/profile.py
pgap2/postprocess/reference_layout.py
pgap2/postprocess/singletree.py
pgap2/postprocess/stat.py
pgap2/postprocess/tajimas_d.py
pgap2/toy_input/287_91.fa
pgap2/toy_input/287_91.gff
pgap2/toy_input/AKU_12601.gff
pgap2/toy_input/Readme_input.md
pgap2/toy_input/SC_B67.gbk
pgap2/utils/__init__.py
pgap2/utils/alignment.py
pgap2/utils/arrangement_detector.py
pgap2/utils/data_loader.py
pgap2/utils/draw.py
pgap2/utils/gene_retriever.py
pgap2/utils/generate_tree.py
pgap2/utils/graph_utils.py
pgap2/utils/partition.py
pgap2/utils/partition_add.py
pgap2/utils/partition_merge.py
pgap2/utils/partition_minus.py
pgap2/utils/postprocess.py
pgap2/utils/preprocess.py
pgap2/utils/supply.py
pgap2/utils/tools.py
tests/test_main.py
tests/test_post.py
tests/test_prep.py