MANIFEST.in
README.md
requirements.txt
setup.py
src/mykrobe/__init__.py
src/mykrobe/base.py
src/mykrobe/cli.py
src/mykrobe/constants.py
src/mykrobe/mformat.py
src/mykrobe/parser.py
src/mykrobe/utils.py
src/mykrobe/version.py
src/mykrobe.egg-info/PKG-INFO
src/mykrobe.egg-info/SOURCES.txt
src/mykrobe.egg-info/dependency_links.txt
src/mykrobe.egg-info/entry_points.txt
src/mykrobe.egg-info/not-zip-safe
src/mykrobe.egg-info/requires.txt
src/mykrobe.egg-info/top_level.txt
src/mykrobe/_vcf/__init__.py
src/mykrobe/_vcf/models.py
src/mykrobe/annotation/__init__.py
src/mykrobe/annotation/genes/__init__.py
src/mykrobe/annotation/genes/models.py
src/mykrobe/cmds/__init__.py
src/mykrobe/cmds/amr.py
src/mykrobe/cmds/dump.py
src/mykrobe/cmds/genotype.py
src/mykrobe/cmds/makeprobes.py
src/mykrobe/cmds/variants/__init__.py
src/mykrobe/cmds/variants/add.py
src/mykrobe/cmds/variants/distance.py
src/mykrobe/cortex/__init__.py
src/mykrobe/cortex/mccortex.py
src/mykrobe/data/BX571856.1.fasta
src/mykrobe/data/BX571856.1.gb
src/mykrobe/data/NC_000962.3.fasta
src/mykrobe/data/NC_000962.3.gb
src/mykrobe/data/tb-hierarchy.json
src/mykrobe/data/panels/staph-amr-bradley_2015-feb-17-2017.fasta.gz
src/mykrobe/data/panels/staph-amr-probe_set_v0_3_13-160715.fasta
src/mykrobe/data/panels/staph-amr-probe_set_v0_3_13-160715.fasta.gz
src/mykrobe/data/panels/staph-species-160227.fasta.gz
src/mykrobe/data/panels/tb-amr-bradley_2015.fasta.gz
src/mykrobe/data/panels/tb-bradley-probe-set-feb-02-2017.fasta.gz
src/mykrobe/data/panels/tb-bradley-probe-set-feb-09-2017.fasta.gz
src/mykrobe/data/panels/tb-bradley-probe-set-jan-2019.fasta.gz
src/mykrobe/data/panels/tb-hunt-probe-set-jan-03-2019.fasta.gz
src/mykrobe/data/panels/tb-k21-probe-set-feb-09-2017.fasta.gz
src/mykrobe/data/panels/tb-species-160330.fasta.gz
src/mykrobe/data/panels/tb-species-170421.fasta.gz
src/mykrobe/data/panels/tb-walker-probe-set-feb-02-2017.fasta.gz
src/mykrobe/data/panels/tb-walker-probe-set-feb-09-2017.fasta.gz
src/mykrobe/data/panels/tb-walker-probe-set-jan-2019.fasta.gz
src/mykrobe/data/phylo/mtbc_hierarchy.json
src/mykrobe/data/predict/taxon_coverage_threshold.json
src/mykrobe/data/predict/gn/variant_to_resistance_drug.json
src/mykrobe/data/predict/staph/variant_to_resistance_drug.json
src/mykrobe/data/predict/tb/variant_to_resistance_drug-jan-03-2019.json
src/mykrobe/data/predict/tb/variant_to_resistance_drug.json
src/mykrobe/metagenomics/__init__.py
src/mykrobe/metagenomics/models.py
src/mykrobe/metagenomics/phylo.py
src/mykrobe/predict/__init__.py
src/mykrobe/predict/amr.py
src/mykrobe/predict/models.py
src/mykrobe/probes/__init__.py
src/mykrobe/probes/models.py
src/mykrobe/probes/probe_generation.py
src/mykrobe/stats/__init__.py
src/mykrobe/stats/stats.py
src/mykrobe/typing/__init__.py
src/mykrobe/typing/models/__init__.py
src/mykrobe/typing/models/base.py
src/mykrobe/typing/models/panel.py
src/mykrobe/typing/models/presence.py
src/mykrobe/typing/models/variant.py
src/mykrobe/typing/typer/__init__.py
src/mykrobe/typing/typer/base.py
src/mykrobe/typing/typer/genotyper.py
src/mykrobe/typing/typer/presence.py
src/mykrobe/typing/typer/variant.py
src/mykrobe/variants/__init__.py
src/mykrobe/variants/schema/__init__.py
src/mykrobe/variants/schema/models/__init__.py
src/mykrobe/variants/schema/models/base.py
src/mykrobe/variants/schema/models/references.py
src/mykrobe/variants/schema/models/variants.py