LICENSE
README.md
pyproject.toml
src/flavotyper/__init__.py
src/flavotyper/__main__.py
src/flavotyper/align.py
src/flavotyper/cli.py
src/flavotyper/config.py
src/flavotyper/database.py
src/flavotyper/exceptions.py
src/flavotyper/io.py
src/flavotyper/locus.py
src/flavotyper/locus_align.py
src/flavotyper/locus_map.py
src/flavotyper/marker_names.py
src/flavotyper/models.py
src/flavotyper/pipeline.py
src/flavotyper/provenance.py
src/flavotyper/report.py
src/flavotyper/species.py
src/flavotyper/typing_rules.py
src/flavotyper.egg-info/PKG-INFO
src/flavotyper.egg-info/SOURCES.txt
src/flavotyper.egg-info/dependency_links.txt
src/flavotyper.egg-info/entry_points.txt
src/flavotyper.egg-info/requires.txt
src/flavotyper.egg-info/top_level.txt
src/flavotyper/data/Flavobacterium_psychrophilum_NCIMB_1947T.fna
src/flavotyper/data/Flavotyper_markers.fasta
src/flavotyper/data/Flavotyper_reference_loci.fasta
src/flavotyper/data/Flavotyper_rules.yaml
tests/test_align.py
tests/test_config.py
tests/test_database.py
tests/test_locus_align.py
tests/test_locus_map.py
tests/test_locus_map_render.py
tests/test_pipeline.py
tests/test_report.py
tests/test_species.py
tests/test_typing_rules.py