MANIFEST.in
README.md
setup.cfg
setup.py
argoap/ARGs_OAP.py
argoap/README.md
argoap/__init__.py
argoap/argoap_pipeline_stageone_version2
argoap/argoap_pipeline_stageone_version2.3
argoap/argoap_pipeline_stagetwo_version2
argoap/index.rst
argoap/stage_one.py
argoap/stage_two.py
argoap.egg-info/PKG-INFO
argoap.egg-info/SOURCES.txt
argoap.egg-info/dependency_links.txt
argoap.egg-info/entry_points.txt
argoap.egg-info/top_level.txt
argoap/DB/KO30_DIAMOND.dmnd
argoap/DB/SARG.2.2.diamondv0.9.24.dmnd
argoap/DB/SARG.2.2.fasta
argoap/DB/SARG.2.2.fasta.phr
argoap/DB/SARG.2.2.fasta.pin
argoap/DB/SARG.2.2.fasta.psq
argoap/DB/all_KO30_name.list
argoap/DB/gg85.fasta
argoap/DB/gg85_yinxiaole.fasta.mmi
argoap/DB/structure_20181107.LIST
argoap/DB/update_45_sarg2.0_16s.table_201704.txt
argoap/DB/update_45_sarg2.0_cell.table_201704.txt
argoap/bin/Fq2fa.pl
argoap/bin/blastx
argoap/bin/copy_correction.pl
argoap/bin/de-replicate.pl
argoap/bin/diamond
argoap/bin/diamondv0.9.24
argoap/bin/divide_extract.fa_meta_data_online.pl
argoap/bin/extract_usearch_reads.pl
argoap/bin/fastp
argoap/bin/merge_extracted_fa_update_metadate.v2.3.pl
argoap/bin/minimap2
argoap/bin/obtain_community.pl
argoap/bin/samtools
argoap/bin/bbmap/README.md
argoap/bin/bbmap/a_sample_mt.sh
argoap/bin/bbmap/addadapters.sh
argoap/bin/bbmap/addssu.sh
argoap/bin/bbmap/adjusthomopolymers.sh
argoap/bin/bbmap/alltoall.sh
argoap/bin/bbmap/analyzeaccession.sh
argoap/bin/bbmap/analyzegenes.sh
argoap/bin/bbmap/analyzesketchresults.sh
argoap/bin/bbmap/applyvariants.sh
argoap/bin/bbmap/bbcms.sh
argoap/bin/bbmap/bbcountunique.sh
argoap/bin/bbmap/bbduk.sh
argoap/bin/bbmap/bbest.sh
argoap/bin/bbmap/bbfakereads.sh
argoap/bin/bbmap/bbmap.sh
argoap/bin/bbmap/bbmapskimmer.sh
argoap/bin/bbmap/bbmask.sh
argoap/bin/bbmap/bbmerge-auto.sh
argoap/bin/bbmap/bbmerge.sh
argoap/bin/bbmap/bbnorm.sh
argoap/bin/bbmap/bbrealign.sh
argoap/bin/bbmap/bbrename.sh
argoap/bin/bbmap/bbsketch.sh
argoap/bin/bbmap/bbsplit.sh
argoap/bin/bbmap/bbsplitpairs.sh
argoap/bin/bbmap/bbstats.sh
argoap/bin/bbmap/bbversion.sh
argoap/bin/bbmap/bbwrap.sh
argoap/bin/bbmap/bloomfilter.sh
argoap/bin/bbmap/calcmem.sh
argoap/bin/bbmap/calctruequality.sh
argoap/bin/bbmap/callgenes.sh
argoap/bin/bbmap/callpeaks.sh
argoap/bin/bbmap/callvariants.sh
argoap/bin/bbmap/callvariants2.sh
argoap/bin/bbmap/clumpify.sh
argoap/bin/bbmap/commonkmers.sh
argoap/bin/bbmap/comparegff.sh
argoap/bin/bbmap/comparesketch.sh
argoap/bin/bbmap/comparessu.sh
argoap/bin/bbmap/comparevcf.sh
argoap/bin/bbmap/consect.sh
argoap/bin/bbmap/consensus.sh
argoap/bin/bbmap/countbarcodes.sh
argoap/bin/bbmap/countgc.sh
argoap/bin/bbmap/countsharedlines.sh
argoap/bin/bbmap/crossblock.sh
argoap/bin/bbmap/crosscontaminate.sh
argoap/bin/bbmap/cutgff.sh
argoap/bin/bbmap/cutprimers.sh
argoap/bin/bbmap/decontaminate.sh
argoap/bin/bbmap/dedupe.sh
argoap/bin/bbmap/dedupe2.sh
argoap/bin/bbmap/dedupebymapping.sh
argoap/bin/bbmap/demuxbyname.sh
argoap/bin/bbmap/diskbench.sh
argoap/bin/bbmap/estherfilter.sh
argoap/bin/bbmap/explodetree.sh
argoap/bin/bbmap/fetchproks.sh
argoap/bin/bbmap/filterassemblysummary.sh
argoap/bin/bbmap/filterbarcodes.sh
argoap/bin/bbmap/filterbycoverage.sh
argoap/bin/bbmap/filterbyname.sh
argoap/bin/bbmap/filterbysequence.sh
argoap/bin/bbmap/filterbytaxa.sh
argoap/bin/bbmap/filterbytile.sh
argoap/bin/bbmap/filterlines.sh
argoap/bin/bbmap/filterqc.sh
argoap/bin/bbmap/filtersam.sh
argoap/bin/bbmap/filtersilva.sh
argoap/bin/bbmap/filtersubs.sh
argoap/bin/bbmap/filtervcf.sh
argoap/bin/bbmap/fixgaps.sh
argoap/bin/bbmap/fungalrelease.sh
argoap/bin/bbmap/fuse.sh
argoap/bin/bbmap/gbff2gff.sh
argoap/bin/bbmap/getreads.sh
argoap/bin/bbmap/gi2ancestors.sh
argoap/bin/bbmap/gi2taxid.sh
argoap/bin/bbmap/gitable.sh
argoap/bin/bbmap/grademerge.sh
argoap/bin/bbmap/gradesam.sh
argoap/bin/bbmap/icecreamfinder.sh
argoap/bin/bbmap/icecreamgrader.sh
argoap/bin/bbmap/icecreammaker.sh
argoap/bin/bbmap/idmatrix.sh
argoap/bin/bbmap/idtree.sh
argoap/bin/bbmap/invertkey.sh
argoap/bin/bbmap/kapastats.sh
argoap/bin/bbmap/kcompress.sh
argoap/bin/bbmap/keepbestcopy.sh
argoap/bin/bbmap/khist.sh
argoap/bin/bbmap/kmercountexact.sh
argoap/bin/bbmap/kmercountmulti.sh
argoap/bin/bbmap/kmercoverage.sh
argoap/bin/bbmap/kmerfilterset.sh
argoap/bin/bbmap/kmerlimit.sh
argoap/bin/bbmap/kmerlimit2.sh
argoap/bin/bbmap/license.txt
argoap/bin/bbmap/lilypad.sh
argoap/bin/bbmap/loadreads.sh
argoap/bin/bbmap/loglog.sh
argoap/bin/bbmap/makechimeras.sh
argoap/bin/bbmap/makecontaminatedgenomes.sh
argoap/bin/bbmap/makepolymers.sh
argoap/bin/bbmap/mapPacBio.sh
argoap/bin/bbmap/matrixtocolumns.sh
argoap/bin/bbmap/mergeOTUs.sh
argoap/bin/bbmap/mergebarcodes.sh
argoap/bin/bbmap/mergepgm.sh
argoap/bin/bbmap/mergeribo.sh
argoap/bin/bbmap/mergesam.sh
argoap/bin/bbmap/mergesketch.sh
argoap/bin/bbmap/mergesorted.sh
argoap/bin/bbmap/msa.sh
argoap/bin/bbmap/mutate.sh
argoap/bin/bbmap/muxbyname.sh
argoap/bin/bbmap/partition.sh
argoap/bin/bbmap/phylip2fasta.sh
argoap/bin/bbmap/pileup.sh
argoap/bin/bbmap/plotflowcell.sh
argoap/bin/bbmap/plotgc.sh
argoap/bin/bbmap/postfilter.sh
argoap/bin/bbmap/printtime.sh
argoap/bin/bbmap/processfrag.sh
argoap/bin/bbmap/processhi-c.sh
argoap/bin/bbmap/processspeed.sh
argoap/bin/bbmap/randomgenome.sh
argoap/bin/bbmap/randomreads.sh
argoap/bin/bbmap/readlength.sh
argoap/bin/bbmap/readqc.sh
argoap/bin/bbmap/reducesilva.sh
argoap/bin/bbmap/reformat.sh
argoap/bin/bbmap/removebadbarcodes.sh
argoap/bin/bbmap/removecatdogmousehuman.sh
argoap/bin/bbmap/removehuman.sh
argoap/bin/bbmap/removehuman2.sh
argoap/bin/bbmap/removemicrobes.sh
argoap/bin/bbmap/removesmartbell.sh
argoap/bin/bbmap/rename.sh
argoap/bin/bbmap/renameimg.sh
argoap/bin/bbmap/repair.sh
argoap/bin/bbmap/replaceheaders.sh
argoap/bin/bbmap/representative.sh
argoap/bin/bbmap/rqcfilter.sh
argoap/bin/bbmap/rqcfilter2.sh
argoap/bin/bbmap/samtoroc.sh
argoap/bin/bbmap/seal.sh
argoap/bin/bbmap/sendsketch.sh
argoap/bin/bbmap/shred.sh
argoap/bin/bbmap/shrinkaccession.sh
argoap/bin/bbmap/shuffle.sh
argoap/bin/bbmap/shuffle2.sh
argoap/bin/bbmap/sketch.sh
argoap/bin/bbmap/sketchblacklist.sh
argoap/bin/bbmap/sketchblacklist2.sh
argoap/bin/bbmap/sortbyname.sh
argoap/bin/bbmap/splitbytaxa.sh
argoap/bin/bbmap/splitnextera.sh
argoap/bin/bbmap/splitribo.sh
argoap/bin/bbmap/splitsam.sh
argoap/bin/bbmap/splitsam4way.sh
argoap/bin/bbmap/splitsam6way.sh
argoap/bin/bbmap/stats.sh
argoap/bin/bbmap/statswrapper.sh
argoap/bin/bbmap/streamsam.sh
argoap/bin/bbmap/subsketch.sh
argoap/bin/bbmap/summarizecontam.sh
argoap/bin/bbmap/summarizecoverage.sh
argoap/bin/bbmap/summarizecrossblock.sh
argoap/bin/bbmap/summarizemerge.sh
argoap/bin/bbmap/summarizequast.sh
argoap/bin/bbmap/summarizescafstats.sh
argoap/bin/bbmap/summarizeseal.sh
argoap/bin/bbmap/summarizesketch.sh
argoap/bin/bbmap/synthmda.sh
argoap/bin/bbmap/tadpipe.sh
argoap/bin/bbmap/tadpole.sh
argoap/bin/bbmap/tadwrapper.sh
argoap/bin/bbmap/taxonomy.sh
argoap/bin/bbmap/taxserver.sh
argoap/bin/bbmap/taxsize.sh
argoap/bin/bbmap/taxtree.sh
argoap/bin/bbmap/testfilesystem.sh
argoap/bin/bbmap/testformat.sh
argoap/bin/bbmap/testformat2.sh
argoap/bin/bbmap/tetramerfreq.sh
argoap/bin/bbmap/textfile.sh
argoap/bin/bbmap/translate6frames.sh
argoap/bin/bbmap/unicode2ascii.sh
argoap/bin/bbmap/unzip.sh
argoap/bin/bbmap/vcf2gff.sh
argoap/bin/bbmap/webcheck.sh