README.md
setup.py
OLCTools.egg-info/PKG-INFO
OLCTools.egg-info/SOURCES.txt
OLCTools.egg-info/dependency_links.txt
OLCTools.egg-info/requires.txt
OLCTools.egg-info/top_level.txt
accessoryFunctions/__init__.py
accessoryFunctions/accessoryFunctions.py
accessoryFunctions/metadataprinter.py
biotools/__init__.py
biotools/accessoryfunctions.py
biotools/bbtools.py
biotools/fasta.py
biotools/jellyfish.py
biotools/kmc.py
biotools/mash.py
biotools/prokka.py
coreGenome/__init__.py
coreGenome/annotate.py
coreGenome/core.py
coreGenome/coretyper.py
metagenomefilter/__init__.py
metagenomefilter/automateCLARK.py
metagenomefilter/filtermetagenome.py
sipprCommon/__init__.py
sipprCommon/bowtie.py
sipprCommon/createObject.py
sipprCommon/database.py
sipprCommon/editsamheaders.py
sipprCommon/fastqCreator.py
sipprCommon/objectprep.py
sipprCommon/offhours.py
sipprCommon/runMetadata.py
sipprCommon/sippingmethods.py
spadespipeline/CHAS.py
spadespipeline/GeneSeekr.py
spadespipeline/__init__.py
spadespipeline/basicAssembly.py
spadespipeline/bowtie.py
spadespipeline/compress.py
spadespipeline/createobject.py
spadespipeline/depth.py
spadespipeline/errorcorrection.py
spadespipeline/fastqCreator.py
spadespipeline/fastqmover.py
spadespipeline/fileprep.py
spadespipeline/getmlst.py
spadespipeline/mMLST.py
spadespipeline/mash.py
spadespipeline/metadataReader.py
spadespipeline/metadataprinter.py
spadespipeline/offhours.py
spadespipeline/plasmidfinder.py
spadespipeline/primer_finder_bbduk.py
spadespipeline/prodigal.py
spadespipeline/prophages.py
spadespipeline/quality.py
spadespipeline/quaster.py
spadespipeline/reporter.py
spadespipeline/runMetadata.py
spadespipeline/serotype.py
spadespipeline/sistr.py
spadespipeline/sixteenS.py
spadespipeline/spadesRun.py
spadespipeline/typingclasses.py
spadespipeline/univec.py
spadespipeline/versions.py
spadespipeline/virulence.py
spadespipeline/vtyper.py