LICENSE
README.md
pyproject.toml
src/PyamilySeq/Group_Compare.py
src/PyamilySeq/Group_Extractor.py
src/PyamilySeq/Group_Sizes.py
src/PyamilySeq/Group_Splitter.py
src/PyamilySeq/Group_Summary.py
src/PyamilySeq/PyamilySeq.py
src/PyamilySeq/PyamilySeq_Genus.py
src/PyamilySeq/PyamilySeq_Species.py
src/PyamilySeq/Seq_Combiner.py
src/PyamilySeq/Seq_Extractor.py
src/PyamilySeq/Seq_Finder.py
src/PyamilySeq/__init__.py
src/PyamilySeq/clusterings.py
src/PyamilySeq/cohort_analysis.py
src/PyamilySeq/constants.py
src/PyamilySeq/families.py
src/PyamilySeq/genome_reports.py
src/PyamilySeq/incremental.py
src/PyamilySeq/location_tracking.py
src/PyamilySeq/nucleotide_placement.py
src/PyamilySeq/order_analysis.py
src/PyamilySeq/report_supplementation_impact.py
src/PyamilySeq/utils.py
src/PyamilySeq/validation.py
src/PyamilySeq/visualisations.py
src/PyamilySeq/workflow.py
src/PyamilySeq.egg-info/PKG-INFO
src/PyamilySeq.egg-info/SOURCES.txt
src/PyamilySeq.egg-info/dependency_links.txt
src/PyamilySeq.egg-info/entry_points.txt
src/PyamilySeq.egg-info/requires.txt
src/PyamilySeq.egg-info/top_level.txt
tests/test_annotation_metadata.py
tests/test_assembly_report.py
tests/test_auxiliary_tools.py
tests/test_cohort_analysis.py
tests/test_contig_replicon_collector.py
tests/test_family_ledger.py
tests/test_incremental.py
tests/test_location_robustness.py
tests/test_location_tracking.py
tests/test_order_analysis.py
tests/test_reference_selection.py
tests/test_regressions.py
tests/test_replicon_metadata_resolver.py
tests/test_reporting_patch.py
tests/test_sequence_store.py
tests/test_single_copy_reconciliation.py
tests/test_supplementation_reporting_smoke.py
tests/test_utils_extraction.py
tests/test_validation.py