# 使用 Homebrew, apt, Nix 安装 fastqc

查看 fastqc 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:fastqc
```

其他安装命令:

### macOS

- Homebrew (100%):

```sh
brew install fastqc
```

  证据: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install fastqc
```

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

- Nix (92%):

```sh
nix profile install nixpkgs#fastqc
```

  证据: nixpkgs package indexes: pkgs/by-name/fa/fastqc/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1

## 软件包事实

- **软件包键:** brew:fastqc
- **软件包管理器:** Homebrew
- **软件包管理器页面:** <https://formulae.brew.sh/formula/fastqc>
- **版本:** 0.12.1
- **来源摘要:** Quality control tool for high throughput sequence data
- **主页:** <https://www.bioinformatics.babraham.ac.uk/projects/fastqc/>
- **仓库:** <https://github.com/s-andrews/FastQC>
- **上游文档:** <https://www.bioinformatics.babraham.ac.uk/projects/fastqc>
- **许可证:** GPL-3.0-or-later
- **源码归档:** <https://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.12.1.zip>
- **最后更新:** 2026-06-22T14:03:18-07:00
- **已生成:** 2026-07-08T07:18:31+00:00

## 可执行文件

- fastqc (cli)
- fastqc (别名)

## 依赖

- openjdk

## 安装行为

- post-install 钩子: 未定义
- Bottle: 可用 于 all

## 版本和新鲜度

- 页面生成时间: 2026-07-08
- 管理器版本: 0.12.1
- 管理器更新时间: 2026-06-22
- 本地数据: OK
- 上游仓库: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
- 信息: Release/tag comparison is only available for GitHub repositories.
## 项目历史与用法

FastQC is Babraham Bioinformatics' quality-control application for high-throughput sequencing data. It analyzes FASTQ, BAM, and SAM inputs and produces graphical and HTML reports that flag unusual properties before downstream analysis.

### 项目历史

FastQC was created by Simon Andrews at Babraham Bioinformatics and had public releases by April 2010, according to the official project changelog. The project page describes it as stable, mature Java software released under GPL v3 or later.

The GitHub repository was created in 2017 as the public source-code home for developers and bug tracing, while the Babraham project page remains the canonical place for users to download compiled packages and read documentation.

### 采用历史

FastQC became a standard first-pass QC tool for high-throughput sequencing because it works both as an interactive GUI and as a non-interactive pipeline step. The project page emphasizes permanent HTML report export and example reports for Illumina, RNA-Seq adapter contamination, small RNA, RRBS, PacBio, and 454 datasets.

Its release history shows long maintenance from 2010 through the 0.12.x releases in 2023, adapting to new sequencing formats and operational needs such as NovaSeq tile handling, Nanopore format changes, SVG output, and memory options.

### 使用方式

Users run FastQC before deeper analysis to get a quick overview of raw sequence quality. Its modules summarize base quality, sequence content, duplication, adapter content, and other signals, then mark modules as pass, warning, or fail.

FastQC can process multiple files in the graphical application, or run headlessly in pipelines to generate one report per input file. It documents no persistent package configuration file or credential store.

### 为什么软件包爱好者会关心

FastQC is a canonical bioinformatics package-manager resident: a Java GUI that is also a CLI pipeline tool, a project website that predates the GitHub source repo, and output reports recognizable across sequencing workflows.

### 时间线

- 2010: Version 0.1 is released.
- 2017: The public GitHub source repository is created.
- 2018: v0.11.8 is released with performance and behavior fixes.
- 2023: v0.12.x releases add modern report and runtime improvements.

### Related projects

- FastQC is commonly paired with FASTQ preprocessing tools such as fastp; fastp's own README describes its HTML report as FastQC-like.

### 来源

- <https://www.bioinformatics.babraham.ac.uk/projects/fastqc>
- <https://www.bioinformatics.babraham.ac.uk/projects/fastqc/Help>
- <https://github.com/s-andrews/FastQC>
- <https://github.com/s-andrews/FastQC#readme>
- <https://api.github.com/repos/s-andrews/FastQC/releases>


## 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:** fastqc
- **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 - fastqc - 0.12.1+dfsg-4: normalized package name match | Debian stable package indexes: fastqc from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | quality control for high throughput sequence data | https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
- Nix - fastqc: normalized package name match | nixpkgs package indexes: pkgs/by-name/fa/fastqc/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1
- Ubuntu apt - fastqc - 0.12.1+dfsg-3: normalized package name match | Ubuntu 24.04 LTS package indexes: fastqc from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | quality control for high throughput sequence data | https://www.bioinformatics.babraham.ac.uk/projects/fastqc/


## 相关链接

- [Terminal utility packages](https://www.automicvault.com/zh-hans/pkg/terminal-utilities/) - Matched terminal and command-line workflow metadata.
- [Networking and protocol packages](https://www.automicvault.com/zh-hans/pkg/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata.
- [Database and data packages](https://www.automicvault.com/zh-hans/pkg/database-data-tools/) - Matched database, SQL, migration, or data-store metadata.
- [Scientific computing packages](https://www.automicvault.com/zh-hans/pkg/scientific-computing-tools/) - Matched scientific computing metadata.
- [openjdk](https://www.automicvault.com/zh-hans/pkg/brew/openjdk/) - Runtime dependency declared by Homebrew.
- [fastp](https://www.automicvault.com/zh-hans/pkg/brew/fastp/) - Shares av.db curated category or tags: bioinformatics, cli, fastq, quality-control, science.
- [fastq-tools](https://www.automicvault.com/zh-hans/pkg/brew/fastq-tools/) - Shares av.db curated category or tags: bioinformatics, cli, fastq, science, sequencing.
- [rasusa](https://www.automicvault.com/zh-hans/pkg/brew/rasusa/) - Shares av.db curated category or tags: bioinformatics, cli, fastq, science, sequencing.
- [sickle](https://www.automicvault.com/zh-hans/pkg/brew/sickle/) - Shares av.db curated category or tags: bioinformatics, cli, fastq, science, sequencing.
- [adapterremoval](https://www.automicvault.com/zh-hans/pkg/brew/adapterremoval/) - Shares av.db curated category or tags: bioinformatics, cli, 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.
- [fgbio](https://www.automicvault.com/zh-hans/pkg/brew/fgbio/) - Local package facts share a topical domain. Shared terms: bioinformatics, cli, data, high, openjdk.

## Combined YAML source

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