Homebrew Formulae

bbtools

brew install bbtools

Brian Bushnell's tools for manipulating reads

https://bbmap.org/

License: BSD-3-Clause

Development: Pull requests

Formula JSON API: /api/formula/bbtools.json

Formula code: bbtools.rb on GitHub

Bottle (binary package) installation support provided for:

Current versions:

Depends on:

Binaries: a_sample_mt.sh, addadapters.sh, addssu.sh, adjusthomopolymers.sh, alignerbenchmark.sh, alignrandom.sh, alltoall.sh, analyzeaccession.sh, analyzegenes.sh, analyzesketchresults.sh, applyvariants.sh, balancevectors.sh, bamlinestreamer.sh, bandedaligner.sh, bandedplusaligner.sh, bbcms.sh, bbcountunique.sh, bbcrisprfinder.sh, bbduk.sh, bbdukOld.sh, bbdukS.sh, bbest.sh, bbfakereads.sh, bbmap.sh, bbmap5.sh, bbmapacc.sh, bbmapskimmer.sh, bbmask.sh, bbmerge-auto.sh, bbmerge.sh, bbnorm.sh, bbrealign.sh, bbrename.sh, bbsketch.sh, bbsort.sh, bbsplit.sh, bbsplitpairs.sh, bbstats.sh, bbversion.sh, bbwrap.sh, bedset.sh, bloomfilter.sh, bloomfilterparser.sh, calcmem.sh, calctruequality.sh, callgenes.sh, callpeaks.sh, callvariants.sh, callvariants2.sh, cat.sh, cbcl2text.sh, cg2illumina.sh, checkstrand.sh, cladeloader.sh, cladeserver.sh, cloudplot.sh, clumpify.sh, commonkmers.sh, comparegff.sh, comparelabels.sh, comparesketch.sh, comparessu.sh, comparevcf.sh, consect.sh, consensus.sh, copyfile.sh, countbarcodes.sh, countbarcodes2.sh, countduplicates.sh, countgc.sh, countsharedlines.sh, covmaker.sh, crossblock.sh, crosscontaminate.sh, crosscutaligner.sh, cutgff.sh, cutprimers.sh, ddlblacklist.sh, ddlcalibrate.sh, ddlcompare.sh, ddlmerger.sh, ddlwriter.sh, decontaminate.sh, dedupe.sh, dedupe2.sh, dedupebymapping.sh, demuxbyname.sh, demuxserver.sh, diskbench.sh, dlctieraccuracy.sh, driftingaligner.sh, driftingplusaligner.sh, estherfilter.sh, explodetree.sh, fastqscan.sh, fetchproks.sh, filescan.sh, filterassemblysummary.sh, filterbarcodes.sh, filterbycoverage.sh, filterbyname.sh, filterbysequence.sh, filterbytaxa.sh, filterbytile.sh, filterlines.sh, filtersam.sh, filtersilva.sh, filtersubs.sh, filtervcf.sh, findrepeats.sh, findssu.sh, fix_script_paths.sh, fixgaps.sh, fll2simulate.sh, fungalrelease.sh, fuse.sh, fusebytaxa.sh, gbff2gff.sh, getreads.sh, gi2ancestors.sh, gi2taxid.sh, gitable.sh, glocalaligner.sh, gradebins.sh, grademerge.sh, gradesam.sh, gradevcf.sh, icecreamfinder.sh, icecreamgrader.sh, icecreammaker.sh, idmatrix.sh, idtree.sh, indelfree.sh, invertkey.sh, invertvcf.sh, javasetup.sh, kapastats.sh, kcompress.sh, keepbestcopy.sh, khist.sh, kmercountexact.sh, kmercountmulti.sh, kmercountshort.sh, kmercoverage.sh, kmerfilterset.sh, kmerhashdump.sh, kmerlimit.sh, kmerlimit2.sh, kmerposition.sh, kmutate.sh, lilypad.sh, loadreads.sh, loglog.sh, lowcomplexcalibrate.sh, makechimeras.sh, makecontaminatedgenomes.sh, makepolymers.sh, makequickbinvector.sh, mantissacompare.sh, mapPacBio.sh, matrixtocolumns.sh, memdetect.sh, mergeOTUs.sh, mergebarcodes.sh, mergepgm.sh, mergeribo.sh, mergesam.sh, mergesam2.sh, mergesketch.sh, mergesorted.sh, microalign.sh, msa.sh, mutate.sh, muxbyname.sh, netconvert.sh, netfilter.sh, novademux.sh, parallelogram.sh, partition.sh, phylip2fasta.sh, picksubset.sh, pileup.sh, pileup2.sh, plotflowcell.sh, plotgc.sh, plothist.sh, plotreadposition.sh, polyfilter.sh, postfilter.sh, printtime.sh, processfrag.sh, processhi-c.sh, processspeed.sh, profile.sh, quabblealigner.sh, quantumaligner.sh, quickbin.sh, quickclade.sh, randomgenome.sh, randomreads.sh, randomreadsmg.sh, readlength.sh, reassemble.sh, reducecolumns.sh, reducesilva.sh, reformat.sh, reformat2.sh, reformat3.sh, reformatpb.sh, removebadbarcodes.sh, removecatdogmousehuman.sh, removehuman.sh, removehuman2.sh, removemicrobes.sh, removesmartbell.sh, rename.sh, renamebymapping.sh, renamebysketch.sh, renameimg.sh, renameref.sh, repair.sh, replaceheaders.sh, representative.sh, restorebases.sh, rqcfilter.sh, rqcfilter2.sh, rqcfilter3.sh, runhmm.sh, samstreamer.sh, samtoroc.sh, scalarintervals.sh, scalars.sh, scoresequence.sh, scrabblealigner.sh, seal.sh, sendclade.sh, sendsketch.sh, seqtovec.sh, shred.sh, shrinkaccession.sh, shuffle.sh, shuffle2.sh, sketch.sh, sketchblacklist.sh, sketchblacklist2.sh, smithwaterman.sh, sortbyname.sh, splitbytaxa.sh, splitnextera.sh, splitribo.sh, splitsam.sh, splitsam4way.sh, splitsam6way.sh, ssuserver.sh, stats.sh, stats3.sh, statswrapper.sh, stream.sh, streamsam.sh, subsketch.sh, summarizecontam.sh, summarizecoverage.sh, summarizecrossblock.sh, summarizemerge.sh, summarizequast.sh, summarizescafstats.sh, summarizeseal.sh, summarizesketch.sh, synthmda.sh, tadpipe.sh, tadpole.sh, tadwrapper.sh, tagandmerge.sh, taxonomy.sh, taxserver.sh, taxsize.sh, taxtree.sh, testaligners.sh, testaligners2.sh, testalignersbatch.sh, testalignerslength.sh, testfilesystem.sh, testformat.sh, testformat2.sh, tetramerfreq.sh, textfile.sh, tiledump.sh, train.sh, trainLCHist.sh, translate6frames.sh, trimcontigs.sh, ttllsimulate.sh, unicode2ascii.sh, unzip.sh, vcf2gff.sh, vectorutils.sh, visualizealignment.sh, wavefrontaligner.sh, wavefrontalignerviz.sh, webcheck.sh, wobblealigner.sh, wobbleplusaligner.sh, xdrophaligner.sh, zz_rename_package.sh

Analytics: