# Installer cutadapt avec Homebrew, apt

Consultez les chemins d'installation, exécutables, métadonnées et notes de sécurité de cutadapt pour les workflows d'agents IA.

## installation

```sh
sudo av install brew:cutadapt
```

Commandes d'installation supplémentaires:

### macOS

- Homebrew (100%):

```sh
brew install cutadapt
```

  Preuve: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install cutadapt
```

  Preuve: Debian stable package indexes: cutadapt from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz

## Faits du paquet

- **Clé du paquet:** brew:cutadapt
- **Gestionnaire de paquets:** Homebrew
- **Page du gestionnaire de paquets:** <https://formulae.brew.sh/formula/cutadapt>
- **Version:** 5.2
- **Résumé source:** Removes adapter sequences from sequencing reads
- **Page d'accueil:** <https://cutadapt.readthedocs.io>
- **Dépôt:** <https://github.com/marcelm/cutadapt>
- **Docs amont:** <https://cutadapt.readthedocs.io/>
- **Licence:** MIT
- **Archive source:** <https://github.com/marcelm/cutadapt.git>
- **Dernière mise à jour:** 2026-05-04T20:29:09Z
- **Généré:** 2026-07-08T07:18:31+00:00

## exécutables

- cutadapt (cli)
- cutadapt (alias)

## Dépendances

- python@3.14

## Comportement d'installation

- hook post-installation: non défini
- Bouteille: disponible sur arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux

## Version et fraîcheur

- page générée: 2026-07-08
- version du gestionnaire: 5.2
- gestionnaire mis à jour: 2026-05-04
- données locales: OK
- dépôt amont: https://github.com/marcelm/cutadapt
- info: No cached GitHub release or tag data was available.
## Historique du projet et usages

Cutadapt is a bioinformatics command-line tool for finding and removing adapter sequences, primers, poly-A tails, and other unwanted sequence from high-throughput sequencing reads. Its documentation presents trimming as a routine cleanup step for small-RNA, amplicon, and other sequencing workflows.

### Historique du projet

The project documentation says Cutadapt development began at TU Dortmund University in Prof. Sven Rahmann's group and is now developed within NBIS, the National Bioinformatics Infrastructure Sweden. The documentation copyright begins in 2010, and the changelog records early public releases starting with v0.1 in September 2010.

### Historique d'adoption

Cutadapt became part of the standard sequencing-preprocessing toolbox because it solves a common, format-heavy cleanup problem with a scriptable CLI. The official README links to PyPI, source code, documentation, and a Galaxy platform wrapper, and its badges point to Python packaging and Bioconda distribution.

### Modes d'utilisation

The tool is normally used in pipelines before alignment or downstream analysis: users provide FASTQ/FASTA reads and adapter or primer patterns, then ask Cutadapt to trim, filter, modify, demultiplex, and report results. Its changelog shows long-running attention to paired-end reads, JSON reports, demultiplexing, compression speed, Python version support, and reproducible output.

### Pourquoi les passionnés de paquets s'y intéressent

Cutadapt is package-manager significant because it bridges Python packaging, bioinformatics channels, and Unix CLI workflows. It is both a Python package and a command-line executable, with stable documentation, a citation, and a long changelog that makes downstream packaging and reproducibility work tractable.

### Chronologie

- 2010: v0.1 appears in the official changelog.
- 2011: v1.0 released, according to the changelog.
- 2012: Public GitHub repository created.
- 2019: v2.0 released with documented backward-incompatible changes.
- 2024: v5.0 released with demultiplexing behavior changes and performance-related defaults.
- 2025: v5.2 documented in the stable changelog.

### Related projects

- The official README links Cutadapt to PyPI, Bioconda packaging, Galaxy's tools-iuc wrapper, and its Read the Docs documentation.

### Sources

- <https://cutadapt.readthedocs.io/>
- <https://cutadapt.readthedocs.io/en/stable/changes.html>
- <https://raw.githubusercontent.com/marcelm/cutadapt/main/README.rst>
- <https://api.github.com/repos/marcelm/cutadapt>


## Notes de sécurité

narrow executable package without higher-risk signals.

- **Risque Geiger:** vert / faible
- narrow executable package without higher-risk signals

## Détails de la base source

- **Source Database:** Homebrew formula API
- **Tap:** homebrew/core
- **Full Name:** cutadapt
- **Version Scheme:** 0
- **Revision:** 0
- **Bottle Stable Root URL:** <https://ghcr.io/v2/homebrew/core>
- **Deprecated:** no
- **Disabled:** no
- **Keg Only:** no
- **URL Keys:** stable

## Autres enregistrements de gestionnaires de paquets

- Debian apt - cutadapt - 4.7-2: normalized package name match | Debian stable package indexes: cutadapt from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | Clean biological sequences from high-throughput sequencing reads | https://cutadapt.readthedocs.io/
- Ubuntu apt - cutadapt - 4.4-1build2: normalized package name match | Ubuntu 24.04 LTS package indexes: cutadapt from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | Clean biological sequences from high-throughput sequencing reads | https://cutadapt.readthedocs.io/


## Liens liés

- [Terminal utility packages](https://www.automicvault.com/fr/pkg/terminal-utilities/) - Matched terminal and command-line workflow metadata.
- [Language runtime packages](https://www.automicvault.com/fr/pkg/language-runtime-packages/) - Matched language runtime, compiler, or interpreter metadata.
- [Networking and protocol packages](https://www.automicvault.com/fr/pkg/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata.
- [Scientific computing packages](https://www.automicvault.com/fr/pkg/scientific-computing-tools/) - Matched scientific computing metadata.
- [python@3.14](https://www.automicvault.com/fr/pkg/brew/python-3-14/) - Runtime dependency declared by Homebrew.
- [adapterremoval](https://www.automicvault.com/fr/pkg/brew/adapterremoval/) - Shares av.db curated category or tags: adapter-trimming, bioinformatics, cli, science, sequencing.
- [fgbio](https://www.automicvault.com/fr/pkg/brew/fgbio/) - Shares av.db curated category or tags: bioinformatics, cli, ngs, science, sequencing.
- [sickle](https://www.automicvault.com/fr/pkg/brew/sickle/) - Shares av.db curated category or tags: bioinformatics, cli, ngs, science, sequencing.
- [alevin-fry](https://www.automicvault.com/fr/pkg/brew/alevin-fry/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing.
- [bbtools](https://www.automicvault.com/fr/pkg/brew/bbtools/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing.
- [bowtie2](https://www.automicvault.com/fr/pkg/brew/bowtie2/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing.
- [btllib](https://www.automicvault.com/fr/pkg/brew/btllib/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing.
- [fastp](https://www.automicvault.com/fr/pkg/brew/fastp/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequencing.
- [flye](https://www.automicvault.com/fr/pkg/brew/flye/) - Both packages touch the same language runtime or ecosystem. Shared terms: bioinformatics, cli, python, python-3-14, reads.
- [spades](https://www.automicvault.com/fr/pkg/brew/spades/) - Both packages touch the same language runtime or ecosystem. Shared terms: bioinformatics, cli, python, python-3-14, science.

## Combined YAML source

View the package source record on GitHub. [combined/cutadapt.yml](https://github.com/automic-vault/db/blob/main/combined/cutadapt.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