# 使用 Homebrew, apt 安装 cutadapt

查看 cutadapt 的安装路径、可执行文件、元数据以及面向 AI 代理工作流的安全说明。

## 安装

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

其他安装命令:

### macOS

- Homebrew (100%):

```sh
brew install cutadapt
```

  证据: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install cutadapt
```

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

## 软件包事实

- **软件包键:** brew:cutadapt
- **软件包管理器:** Homebrew
- **软件包管理器页面:** <https://formulae.brew.sh/formula/cutadapt>
- **版本:** 5.2
- **来源摘要:** Removes adapter sequences from sequencing reads
- **主页:** <https://cutadapt.readthedocs.io>
- **仓库:** <https://github.com/marcelm/cutadapt>
- **上游文档:** <https://cutadapt.readthedocs.io/>
- **许可证:** MIT
- **源码归档:** <https://github.com/marcelm/cutadapt.git>
- **最后更新:** 2026-05-04T20:29:09Z
- **已生成:** 2026-07-08T07:18:31+00:00

## 可执行文件

- cutadapt (cli)
- cutadapt (别名)

## 依赖

- python@3.14

## 安装行为

- post-install 钩子: 未定义
- Bottle: 可用 于 arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux

## 版本和新鲜度

- 页面生成时间: 2026-07-08
- 管理器版本: 5.2
- 管理器更新时间: 2026-05-04
- 本地数据: OK
- 上游仓库: https://github.com/marcelm/cutadapt
- 信息: No cached GitHub release or tag data was available.
## 项目历史与用法

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.

### 项目历史

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.

### 采用历史

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.

### 使用方式

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.

### 为什么软件包爱好者会关心

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.

### 时间线

- 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.

### 来源

- <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>


## 安全说明

narrow executable package without higher-risk signals.

- **Geiger 风险:** 绿色 / 低
- narrow executable package without higher-risk signals

## 源数据库详情

- **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

## 其他软件包管理器记录

- 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/


## 相关链接

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


## 来源

- 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