LICENSE.txt
MANIFEST.in
README.md
setup.cfg
setup.py
Troika_TB.egg-info/PKG-INFO
Troika_TB.egg-info/SOURCES.txt
Troika_TB.egg-info/dependency_links.txt
Troika_TB.egg-info/entry_points.txt
Troika_TB.egg-info/not-zip-safe
Troika_TB.egg-info/requires.txt
Troika_TB.egg-info/top_level.txt
troika_tb/RunTroika.py
troika_tb/__init__.py
troika_tb/troika_tb.py
troika_tb/versions.py
troika_tb/reference/mask.bed
troika_tb/reference/tbdb.fasta
troika_tb/reference/tbdb.fasta.fai
troika_tb/templates/config.yaml
troika_tb/templates/index.html
troika_tb/tests/test_troika.py
troika_tb/tests/troika.txt
troika_tb/utils/collate.py
troika_tb/utils/combine_kraken.py
troika_tb/utils/combine_seqdata.py
troika_tb/utils/compile.py
troika_tb/utils/generate_yield.py
troika_tb/utils/iqtree_generator.sh
troika_tb/utils/kraken.py
troika_tb/utils/mash.py
troika_tb/utils/run_iqtree.py
troika_tb/utils/run_snpit.py
troika_tb/utils/run_tbprofiler.py
troika_tb/utils/seqdata.py
troika_tb/utils/snippy.py
troika_tb/utils/snippy_core.py
troika_tb/utils/snippy_qc.py
troika_tb/utils/snp_dists.py
troika_tb/utils/troika.smk
troika_tb/utils/write_report.py