# cutadapt を Homebrew, apt でインストール

cutadapt のインストール経路、実行ファイル、メタデータ、AI エージェント向けセキュリティノートを確認します。

## インストール

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

追加のインストールコマンド:

### macOS

- Homebrew (100%):

```sh
brew install cutadapt
```

  証拠: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install cutadapt
```

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

## パッケージ情報

- **パッケージキー:** brew:cutadapt
- **パッケージマネージャ:** Homebrew
- **パッケージマネージャページ:** <https://formulae.brew.sh/formula/cutadapt>
- **バージョン:** 5.2
- **ソース概要:** Removes adapter sequences from sequencing reads
- **ホームページ:** <https://cutadapt.readthedocs.io>
- **リポジトリ:** <https://github.com/marcelm/cutadapt>
- **上流ドキュメント:** <https://cutadapt.readthedocs.io/>
- **ライセンス:** MIT
- **ソースアーカイブ:** <https://github.com/marcelm/cutadapt.git>
- **最終更新:** 2026-05-04T20:29:09Z
- **生成日時:** 2026-07-08T07:18:31+00:00

## 実行可能ファイル

- cutadapt (cli)
- cutadapt (エイリアス)

## 依存関係

- python@3.14

## インストール挙動

- post-install フック: 未定義
- Bottle: 利用可能 対象 arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux

## バージョンと鮮度

- ページ生成日: 2026-07-08
- マネージャ版: 5.2
- マネージャ更新日: 2026-05-04
- ローカルデータ: OK
- 上流リポジトリ: https://github.com/marcelm/cutadapt
- 情報: No cached GitHub release or tag data was available.
## プロジェクトの歴史と使われ方

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.

### プロジェクトの歴史

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.

### 採用の歴史

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.

### 使われ方

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.

### パッケージ好きにとっての重要性

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.

### タイムライン

- 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.

### ソース

- <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>


## セキュリティノート

narrow executable package without higher-risk signals.

- **Geiger リスク:** グリーン / 低
- narrow executable package without higher-risk signals

## ソースデータベース詳細

- **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

## 他のパッケージマネージャ記録

- 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/


## 関連リンク

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


## ソース

- 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