brew / rank 3734

Install bbtools with Homebrew

Brian Bushnell's tools for manipulating reads. Version 40.01 via Homebrew; verified 2026-08-03.

Install command Security notes

install

Additional install commands

macOS

Homebrewverified · 100%

brew install bbtools

local Homebrew formula metadata

overview

Package summary

Brian Bushnell's tools for manipulating reads

Project links

Homepage

Commands and aliases

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

history

Project history and usage

BBTools is Brian Bushnell's large Java-based suite for DNA and RNA sequencing data. The suite includes BBMap, BBDuk, BBMerge, BBNorm, Tadpole, Clumpify, CallVariants, sketching tools, and many other command-line utilities.

Project history

The official site identifies BBMap and BBTools as the official suite created and maintained by Brian Bushnell. The GitHub README describes BBTools as fast, multithreaded bioinformatics tools for common sequencing formats including FASTQ, FASTA, SAM/BAM, GFF/GTF, VCF, and compressed files.

The package grew from core read-mapping and read-processing utilities into a broad toolbox. The official site lists hundreds of tools, while the README highlights core workflows such as adapter trimming, read mapping, error correction, assembly, compression optimization, variant calling, and MinHash-style sketch comparison.

The upstream README lists the current version as 39.93 and states that BBTools is used in production at JGI and cited in thousands of publications.

Adoption history

BBTools' adoption is anchored in genomics labs and sequencing pipelines rather than general developer workflows. Its official download paths include GitHub, SourceForge, and Docker, while Homebrew packages it for macOS and Linux users who want the command suite installed alongside other scientific CLI tools.

How it is used

Common usage is pipeline-oriented: run scripts such as `bbduk.sh` for adapter trimming and quality filtering, `bbmap.sh` for short-read alignment, `bbmerge.sh` for paired-read merging, `tadpole.sh` for correction or small assembly, and `sendsketch.sh` for rapid organism identification.

Because it is Java-based and shell-script driven, BBTools is portable across Unix-like systems and easy to embed in HPC, workflow-manager, and lab automation environments.

Why package nerds care

BBTools matters to package nerds because it is a dense scientific tool suite distributed as many small executables from one upstream project. It is a good example of why package managers sometimes need to expose an entire research toolkit rather than one binary.

It also illustrates the packaging tension around bioinformatics software: users need reproducible versions, hundreds of entry points, Java runtime assumptions, documentation, and citation metadata, all for tools that may be critical to published scientific pipelines.

Timeline

2014: README citation names `BBMap: A Fast, Accurate, Splice-Aware Aligner`.
Current: Official README lists BBTools version 39.93.
Current: Official website describes BBMap/BBTools as Brian Bushnell's maintained suite and links GitHub, SourceForge, and Docker distribution paths.

Related projects

Related projects include BWA, Bowtie2, SAMtools, FastQC, Trimmomatic, Cutadapt, SPAdes, Kraken-style taxonomic tools, and other sequencing QC, alignment, assembly, and classification packages.

Sources

https://bbmap.org/
https://bbmap.org/tools
https://github.com/bbushnell/BBTools#readme
input:source_facts.executables

security posture

No protected-tool coverage found yet

No matching local secret-handling manifest was found for bbtools. Nucleus package metadata is still published here so future coverage has a stable package URL.

Install behavior

No Homebrew bottle metadata was recorded.

Recommended review

Before unattended agent use, check whether the tool reads plaintext credentials, writes remote state, publishes artifacts, or shells out to plugins.

local files

Configuration and credential file locations

These source-backed paths show where this package keeps local settings or durable credentials. Automic Vault can use them as review targets for secret scanning, migration, and command approval.

Configuration files

Config paths the tool may read or write during local use.

Unix: bbmap/config/

executables

Installed executables

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

freshness

Version and freshness

These signals separate page generation age, package-manager activity, and upstream release comparison. Version lag is warned only when an evidence URL and comparable versions are present.

page generated2026-08-03

manager version40.01

manager updated2026-08-03

local dataunknown

upstreamnot available

latest detectednot detected

okNo freshness warnings were generated.

install metadata

Package metadata

Package key	brew:bbtools
Version	40.01
Package manager	Homebrew
Homepage	https://bbmap.org/
Last updated	2026-08-03T09:05:47Z
Pulse	updated
Bottle	not recorded
Service	none declared

source trail

Generated from repository data

This page is generated by av-web from the private package SQLite artifact built by scripts/generate-pkg-sqlite.py.

Combined YAML source

View the package source record on GitHub.

combined/bbtools.yml

Used sources

Geiger risk classifier
cross-ecosystem install command graph
curated configuration and credential file locations
curated package history
pkg.so package database
pkgdb category and tag curation