MANIFEST.in
setup.py
genemethods/__init__.py
genemethods.egg-info/PKG-INFO
genemethods.egg-info/SOURCES.txt
genemethods.egg-info/dependency_links.txt
genemethods.egg-info/top_level.txt
genemethods/MASHsippr/__init__.py
genemethods/MASHsippr/mash.py
genemethods/MASHsippr/mashsippr.py
genemethods/MLSTsippr/__init__.py
genemethods/MLSTsippr/mlst.py
genemethods/MLSTsippr/sipprmlst.py
genemethods/assemblypipeline/CHAS.py
genemethods/assemblypipeline/GeneSeekr.py
genemethods/assemblypipeline/GeneSeekr_tblastx.py
genemethods/assemblypipeline/__init__.py
genemethods/assemblypipeline/basicAssembly.py
genemethods/assemblypipeline/bowtie.py
genemethods/assemblypipeline/compress.py
genemethods/assemblypipeline/createobject.py
genemethods/assemblypipeline/depth.py
genemethods/assemblypipeline/ec_typer.py
genemethods/assemblypipeline/errorcorrection.py
genemethods/assemblypipeline/fastqCreator.py
genemethods/assemblypipeline/fastqmover.py
genemethods/assemblypipeline/fileprep.py
genemethods/assemblypipeline/getmlst.py
genemethods/assemblypipeline/legacy_vtyper.py
genemethods/assemblypipeline/mMLST.py
genemethods/assemblypipeline/metadataReader.py
genemethods/assemblypipeline/mobrecon.py
genemethods/assemblypipeline/offhours.py
genemethods/assemblypipeline/phix.py
genemethods/assemblypipeline/plasmidfinder.py
genemethods/assemblypipeline/primer_finder_bbduk.py
genemethods/assemblypipeline/primers.txt
genemethods/assemblypipeline/prodigal.py
genemethods/assemblypipeline/prophages.py
genemethods/assemblypipeline/quality.py
genemethods/assemblypipeline/quaster.py
genemethods/assemblypipeline/reporter.py
genemethods/assemblypipeline/runMetadata.py
genemethods/assemblypipeline/serotype.py
genemethods/assemblypipeline/sistr.py
genemethods/assemblypipeline/sixteenS.py
genemethods/assemblypipeline/skesa.py
genemethods/assemblypipeline/spadesRun.py
genemethods/assemblypipeline/univec.py
genemethods/assemblypipeline/versions.py
genemethods/assemblypipeline/virulence.py
genemethods/assemblypipeline/vtyper.py
genemethods/cgecore/__init__.py
genemethods/cgecore/alignment.py
genemethods/cgecore/argumentparsing.py
genemethods/cgecore/cgefinder.py
genemethods/cgecore/cmdline.py
genemethods/cgecore/setup.py
genemethods/cgecore/utility.py
genemethods/cgecore/blaster/__init__.py
genemethods/cgecore/blaster/blaster.py
genemethods/cgecore/blaster/run_blaster.py
genemethods/coreGenome/__init__.py
genemethods/coreGenome/annotate.py
genemethods/coreGenome/core.py
genemethods/coreGenome/coretyper.py
genemethods/customsippr/__init__.py
genemethods/customsippr/customsippr.py
genemethods/gdcs/__init__.py
genemethods/gdcs/gdcs.py
genemethods/geneseekr/__init__.py
genemethods/geneseekr/blast.py
genemethods/geneseekr/geneseekr.py
genemethods/geneseekr/parser.py
genemethods/genesippr/__init__.py
genemethods/genesippr/genesippr.py
genemethods/pointfinder/PointFinder.py
genemethods/pointfinder/__init__.py
genemethods/pointsippr/__init__.py
genemethods/pointsippr/pointsippr.py
genemethods/serosippr/__init__.py
genemethods/serosippr/serosippr.py
genemethods/sipprCommon/__init__.py
genemethods/sipprCommon/bowtie.py
genemethods/sipprCommon/createObject.py
genemethods/sipprCommon/create_sample_sheet.py
genemethods/sipprCommon/database.py
genemethods/sipprCommon/editsamheaders.py
genemethods/sipprCommon/fastqCreator.py
genemethods/sipprCommon/objectprep.py
genemethods/sipprCommon/offhours.py
genemethods/sipprCommon/runMetadata.py
genemethods/sipprCommon/sippingmethods.py
genemethods/sipprverse_reporter/__init__.py
genemethods/sipprverse_reporter/reports.py
genemethods/sixteenS/__init__.py
genemethods/sixteenS/sixteens_full.py
genemethods/typingclasses/__init__.py
genemethods/typingclasses/resistance.py
genemethods/typingclasses/typingclasses.py