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share/hymet/results/cases/zymo/run_20251026T174704Z/figures/case_figures_metadata.json
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share/hymet/results/cases/zymo/run_20251026T174704Z/tables/top_taxa_summary.tsv
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share/hymet/run_hymet_cami.sh
share/hymet/scripts/classification.py
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share/hymet/scripts/compare_hymet_modes.sh
share/hymet/scripts/compute_mutation_metrics.py
share/hymet/scripts/downloadDB.py
share/hymet/scripts/limit_candidates.py
share/hymet/scripts/mash.sh
share/hymet/scripts/minimap2.sh
share/hymet/scripts/prepare_mutation_dataset.py
share/hymet/scripts/split_mutated_fasta.py
share/hymet/scripts/taxonomy_hierarchy.py
share/hymet/testdataset/README.md
share/hymet/testdataset/createDatabase.py
share/hymet/testdataset/extractNC.py
share/hymet/testdataset/extractTaxonomy.py
share/hymet/testdataset/filterGCF.py
share/hymet/testdataset/mutationGCF.py
share/hymet/testdataset/simulate_mutations.py
share/hymet/tests/data/mutation_expected.fna
share/hymet/tests/data/mutation_input.fna
share/hymet/tests/test_cli.py
share/hymet/tools/build_id_map.py
share/hymet/tools/diag_overlap.py
share/hymet/tools/eval_cami.py
share/hymet/tools/eval_cami_prior.py
share/hymet/tools/fetch_sketches.sh
share/hymet/tools/generate_cami_subsets.py
share/hymet/tools/hymet2cami.py
share/hymet/tools/mini_classify.py
share/hymet/tools/verify_sketches.sh
share/hymet/workflows/README.md
share/hymet/workflows/config/cami_suite.cfg
share/hymet/workflows/docs/cami_suite_protocol.md
share/hymet/workflows/plot/make_combined_figures.py
share/hymet/workflows/run_cami_suite.sh
