# Install adapterremoval with Homebrew, apt Rapid adapter trimming, identification, and read merging. Version 3.0.1 via Homebrew; verified 2026-07-02. ## Install ```sh sudo av install brew:adapterremoval ``` Additional install commands: ### macOS - Homebrew (100%): ```sh brew install adapterremoval ``` Evidence: local Homebrew formula metadata ### Linux - Debian apt (92%): ```sh sudo apt install adapterremoval ``` Evidence: Debian stable package indexes: adapterremoval from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz ## Package facts - **Package key:** brew:adapterremoval - **Package manager:** Homebrew - **Package manager page:** - **Version:** 3.0.1 - **Source summary:** Rapid adapter trimming, identification, and read merging - **Homepage:** - **Repository:** - **Upstream docs:** - **License:** GPL-3.0-or-later - **Source archive:** - **Last updated:** 2026-07-02T12:16:02Z - **Generated:** 2026-07-08T07:18:31+00:00 ## Executables - adapterremoval3 (cli) - adapterremoval3 (alias) ## Dependencies - isa-l - libdeflate ## Build dependencies - meson - ninja - pkgconf - sphinx-doc ## Install behavior - Post-install hook: not defined - Bottle: available on arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux ## Freshness - Page generated: 2026-07-08 - Package-manager version: 3.0.1 - Package-manager updated: 2026-07-02 - Local data: ok - Upstream repository: https://github.com/MikkelSchubert/adapterremoval - Upstream latest detected: v3.0.1 (current) ## 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. ### Sources - - - ## Security Notes 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. ## Source Database Details - **Source Database:** Homebrew formula API - **Tap:** homebrew/core - **Full Name:** adapterremoval - **Version Scheme:** 0 - **Revision:** 0 - **Bottle Stable Root URL:** - **Deprecated:** no - **Disabled:** no - **Keg Only:** no - **URL Keys:** stable ## Other Package-Manager Records - Debian apt - adapterremoval - 2.3.4-1: normalized package name match | Debian stable package indexes: adapterremoval from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | rapid adapter trimming, identification, and read merging of gene sequences | https://github.com/MikkelSchubert/adapterremoval - Debian apt - adapterremoval-examples - 2.3.4-1: normalized package name match | Debian stable package indexes: adapterremoval-examples from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | rapid adapter trimming, identification, and read merging (example data) | https://github.com/MikkelSchubert/adapterremoval - Ubuntu apt - adapterremoval - 2.3.3-2: normalized package name match | Ubuntu 24.04 LTS package indexes: adapterremoval from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | rapid adapter trimming, identification, and read merging of gene sequences | https://github.com/MikkelSchubert/adapterremoval - Ubuntu apt - adapterremoval-examples - 2.3.3-2: normalized package name match | Ubuntu 24.04 LTS package indexes: adapterremoval-examples from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | rapid adapter trimming, identification, and read merging (example data) | https://github.com/MikkelSchubert/adapterremoval ## Related links - [Source-control packages](https://www.automicvault.com/pkg/source-control-tools/) - Belongs to a source-control command family. - [Terminal utility packages](https://www.automicvault.com/pkg/terminal-utilities/) - Matched terminal and command-line workflow metadata. - [Networking and protocol packages](https://www.automicvault.com/pkg/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata. - [Scientific computing packages](https://www.automicvault.com/pkg/scientific-computing-tools/) - Matched scientific computing metadata. - [isa-l](https://www.automicvault.com/pkg/brew/isa-l/) - Runtime dependency declared by Homebrew. - [libdeflate](https://www.automicvault.com/pkg/brew/libdeflate/) - Runtime dependency declared by Homebrew. - [meson](https://www.automicvault.com/pkg/brew/meson/) - Build dependency declared by Homebrew. - [ninja](https://www.automicvault.com/pkg/brew/ninja/) - Build dependency declared by Homebrew. - [pkgconf](https://www.automicvault.com/pkg/brew/pkgconf/) - Build dependency declared by Homebrew. - [sphinx-doc](https://www.automicvault.com/pkg/brew/sphinx-doc/) - Build dependency declared by Homebrew. - [fastp](https://www.automicvault.com/pkg/brew/fastp/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [fastq-tools](https://www.automicvault.com/pkg/brew/fastq-tools/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [rasusa](https://www.automicvault.com/pkg/brew/rasusa/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [cutadapt](https://www.automicvault.com/pkg/brew/cutadapt/) - Shares av.db curated category or tags: adapter-trimming, bioinformatics, cli, science, sequencing. - [alevin-fry](https://www.automicvault.com/pkg/brew/alevin-fry/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [bbtools](https://www.automicvault.com/pkg/brew/bbtools/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [bowtie2](https://www.automicvault.com/pkg/brew/bowtie2/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [btllib](https://www.automicvault.com/pkg/brew/btllib/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing. - [sickle](https://www.automicvault.com/pkg/brew/sickle/) - Local package facts share a topical domain. Shared terms: bioinformatics, cli, science, sequencing, trimming. ## Combined YAML source View the package source record on GitHub. [combined/adapterremoval.yml](https://github.com/automic-vault/db/blob/main/combined/adapterremoval.yml) ## Sources - Nucleus package database - Geiger risk classifier - package-page enrichment - curated package history - package version freshness - av.db category and tag curation - package relationship graph - external package-manager database matches - cross-ecosystem install command graph