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brew

Install adapterremoval with Homebrew, apt

Rapid adapter trimming, identification, and read merging. Version 3.0.1 via Homebrew; verified 2026-07-02.

Install commandSecurity notes

install

Additional install commands

macOS

Homebrewverified · 100%
brew install adapterremoval

local Homebrew formula metadata

Linux

Debian aptverified · 92%
sudo apt install adapterremoval

Debian stable package indexes · adapterremoval · source: deb.debian.org

overview

Package summary

Rapid adapter trimming, identification, and read merging

Commands and aliases

  • adapterremoval3

history

Project history and usage

AdapterRemoval is a bioinformatics command-line tool for trimming adapter sequences, trimming low-quality bases, merging overlapping paired-end reads, demultiplexing barcoded reads, and producing sequencing QC reports.

Project history

The README cites the original AdapterRemoval publication by Lindgreen in 2012 and the AdapterRemoval v2 paper by Schubert, Lindgreen, and Orlando in 2016. Version 3 is described as a major revision of version 2 focused on simpler defaults, more features, and higher throughput.

The GitHub repository was created in 2014 and now publishes the `adapterremoval3` command with documentation hosted on Read the Docs.

Adoption history

AdapterRemoval became a common sequencing utility because adapter trimming and read merging are routine preprocessing steps for high-throughput sequencing FASTQ data. Its README notes precompiled binaries for Linux, macOS, and Windows, and the supplied input lists Homebrew, Debian, and Ubuntu packages.

How it is used

Users run `adapterremoval3` with input FASTQ files and an output prefix; default behavior can automatically detect adapters, trim low-quality bases, filter reads, write compressed FASTQ, and generate HTML and JSON reports.

Why package nerds care

For package maintainers, AdapterRemoval is a good example of a scientific CLI where reproducibility, CPU-specific acceleration, compression libraries, and manpage/docs installation all matter. Version 3 adds SIMD acceleration and broader platform packaging concerns.

Timeline

  • 2012: Original AdapterRemoval publication appeared in BMC Research Notes.
  • 2014: GitHub repository `MikkelSchubert/adapterremoval` was created.
  • 2016: AdapterRemoval v2 paper described rapid adapter trimming, identification, and read merging.
  • 2022: First AdapterRemoval v3 alpha release was published.
  • 2026: AdapterRemoval v3.0.0 was published.

Related projects

  • Related tools and domains include FASTQ preprocessing pipelines, adapter trimming utilities, Illumina sequencing workflows, SAM/BAM output handling, and QC report generators.

security posture

No protected-tool coverage found yet

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

Install behavior

  • No Homebrew post-install hook is recorded in formula metadata.
  • Homebrew bottle metadata is available for 6 platform targets.
  • Installs with 2 runtime dependencies.
  • Build metadata lists 4 build dependencies.

Recommended review

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

executables

Installed executables

CommandKindExposureNote
adapterremoval3cliglobal executable

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 generated2026-07-08
manager version3.0.1
manager updated2026-07-02
local dataok
upstreamcurrent
latest detectedv3.0.1

https://github.com/MikkelSchubert/adapterremoval

  • okNo freshness warnings were generated.

install metadata

Package metadata

Package keybrew:adapterremoval
Version3.0.1
Package managerHomebrew
Package manager pagehttps://formulae.brew.sh/formula/adapterremoval
Homepagehttps://github.com/MikkelSchubert/adapterremoval
Repositoryhttps://github.com/MikkelSchubert/adapterremoval
Upstream docshttps://adapterremoval.readthedocs.io/
LicenseGPL-3.0-or-later
Source archivehttps://github.com/MikkelSchubert/adapterremoval/archive/refs/tags/v3.0.1.tar.gz
Last updated2026-07-02T12:16:02Z
Pulseupdated
Dependenciesisa-l, libdeflate
Build dependenciesmeson, ninja, pkgconf, sphinx-doc
Bottleavailable (on arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux)
Homebrew post-installnot defined
Servicenone declared

registry facts

Source database details

Source DatabaseHomebrew formula API
Taphomebrew/core
Full Nameadapterremoval
Version Scheme0
Revision0
Bottle Stable Root URLhttps://ghcr.io/v2/homebrew/core
Deprecatedno
Disabledno
Keg Onlyno
URL Keys
  • stable

source database matches

Other package-manager records

Matches are pulled from external package-manager indexes and kept separate from local Automic Vault package links.

Debian apt95%

adapterremoval 2.3.4-1

rapid adapter trimming, identification, and read merging of gene sequences

https://github.com/MikkelSchubert/adapterremoval

sudo apt install adapterremoval
  • Section: science
  • Architecture: amd64
  • 5 dependencies
  • normalized package name match
  • Matched by: Adapterremoval
Debian stable package indexes · deb.debian.org · Debian stable package indexes: adapterremoval from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz
Debian apt95%

adapterremoval-examples 2.3.4-1

rapid adapter trimming, identification, and read merging (example data)

https://github.com/MikkelSchubert/adapterremoval

sudo apt install adapterremoval-examples
  • Section: science
  • Architecture: all
  • Source Package: adapterremoval
  • normalized package name match
  • Matched by: Adapterremoval
Debian stable package indexes · deb.debian.org · Debian stable package indexes: adapterremoval-examples from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz
Ubuntu apt95%

adapterremoval 2.3.3-2

rapid adapter trimming, identification, and read merging of gene sequences

https://github.com/MikkelSchubert/adapterremoval

sudo apt install adapterremoval
  • Section: universe/science
  • Architecture: amd64
  • 5 dependencies
  • normalized package name match
  • Matched by: Adapterremoval
Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: adapterremoval from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz
Ubuntu apt95%

adapterremoval-examples 2.3.3-2

rapid adapter trimming, identification, and read merging (example data)

https://github.com/MikkelSchubert/adapterremoval

sudo apt install adapterremoval-examples
  • Section: universe/science
  • Architecture: all
  • Source Package: adapterremoval
  • normalized package name match
  • Matched by: Adapterremoval
Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: adapterremoval-examples from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz

package graph

Links come from deterministic package relationships, av.db category and tag curation, ecosystem matches, and package hub membership.

Related tools

  • isa-lRuntime dependency declared by Homebrew.
  • libdeflateRuntime dependency declared by Homebrew.
  • mesonBuild dependency declared by Homebrew.
  • ninjaBuild dependency declared by Homebrew.
  • pkgconfBuild dependency declared by Homebrew.
  • sphinx-docBuild dependency declared by Homebrew.

Same workflow

  • fastpShares av.db curated category or tags: bioinformatics, cli, science, sequencing.
  • fastq-toolsShares av.db curated category or tags: bioinformatics, cli, science, sequencing.
  • rasusaShares av.db curated category or tags: bioinformatics, cli, science, sequencing.
  • cutadaptShares av.db curated category or tags: adapter-trimming, bioinformatics, cli, science, sequencing.
  • alevin-fryShares av.db curated category or tags: bioinformatics, cli, science, sequencing.
  • bbtoolsShares av.db curated category or tags: bioinformatics, cli, science, sequencing.

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.

Used sources

  • Geiger risk classifier
  • Nucleus package database
  • av.db category and tag curation
  • cross-ecosystem install command graph
  • curated package history
  • external package-manager database matches
  • package relationship graph
  • package version freshness
  • package-page enrichment