# 使用 Homebrew, apt 安装 spoa

查看 spoa 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:spoa
```

其他安装命令:

### macOS

- Homebrew (100%):

```sh
brew install spoa
```

  证据: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install spoa
```

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

## 软件包事实

- **软件包键:** brew:spoa
- **软件包管理器:** Homebrew
- **版本:** 4.1.5
- **来源摘要:** SIMD partial order alignment tool/library
- **主页:** <https://github.com/rvaser/spoa>
- **仓库:** <https://github.com/rvaser/spoa>
- **最后更新:** 2026-06-21T00:20:16Z
- **已生成:** 2026-08-03T19:37:03+00:00

## 可执行文件

- spoa (别名)

## 安装行为

- Bottle: 不可用

## 版本和新鲜度

- 页面生成时间: 2026-08-03
- 管理器版本: 4.1.5
## 项目历史与用法

Spoa is a C++ SIMD implementation of partial order alignment, packaged as both a command-line tool and library for generating consensus sequences from biological sequence reads.

### 项目历史

The official README defines Spoa as `SIMD POA`, an implementation of the partial order alignment algorithm used to generate consensus sequences. It supports local, global, and semi-global alignment modes, linear, affine, and convex gap modes, and SIMD acceleration through SSE4.1+, AVX2, SIMDe, and dispatching.

Spoa is tied to the long-read sequencing era: the README points to the original POA and consensus-sequence literature, while the project is also marked as published in Genome Research. In package form, it gives bioinformatics pipelines a small native executable and a linkable library rather than a large workflow framework.

### 采用历史

The supplied package-manager data lists Spoa in Homebrew and as `libspoa-dev` in Debian and Ubuntu. That packaging split reflects its dual role: command for direct FASTA/FASTQ processing and development library for other genomics tools.

### 使用方式

The `spoa` command reads FASTA or FASTQ sequences, including gzip-compressed input, and writes consensus or multiple-sequence-alignment FASTA output. Options select scoring, gap penalties, alignment mode, and result mode.

### 为什么软件包爱好者会关心

Spoa matters to package maintainers because it is a compact, performance-sensitive C++ bioinformatics dependency. Its optional SIMD/SIMDe paths and library install targets are exactly the kind of details that determine whether a formula or distro package is useful beyond a single architecture.

### 时间线

- 2002: Partial order alignment is published in Bioinformatics, the algorithmic foundation cited by the Spoa README.
- 2003: Consensus sequence generation with partial order graphs is published, also cited by the Spoa README.
- 2017: Spoa is associated with a Genome Research publication badge in the official repository.
- Ongoing: The README documents CMake and Meson builds plus SIMD and portability options.

### Related projects

- The original POA algorithm and consensus-sequence papers are cited by the official Spoa README.
- SIMDe is listed as a portability option for SIMD support.
- bioparser and biosoup are listed as dependencies for the executable and tests.

### 来源

- <https://github.com/rvaser/spoa#readme>
- source_facts.package-manager


## 安全说明

library-like package without higher-risk signals.

- **Geiger 风险:** 绿色 / 低
- library-like package without higher-risk signals

## 其他软件包管理器记录

- Debian apt - libspoa-dev - 4.1.4-2+b1: normalized package name match | Debian stable package indexes: libspoa-dev from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | SIMD partial order alignment library (development files) | https://github.com/rvaser/spoa
- Debian apt - libspoa7.0.0 - 4.1.4-2+b1: normalized package name match | Debian stable package indexes: libspoa7.0.0 from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | SIMD partial order alignment library | https://github.com/rvaser/spoa
- Debian apt - spoa - 4.1.4-2+b1: normalized package name match | Debian stable package indexes: spoa from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | SIMD partial order alignment tool | https://github.com/rvaser/spoa
- Ubuntu apt - libspoa-dev - 4.0.8-1: normalized package name match | Ubuntu 24.04 LTS package indexes: libspoa-dev from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | SIMD partial order alignment library (development files) | https://github.com/rvaser/spoa
- Ubuntu apt - libspoa7.0.0 - 4.0.8-1: normalized package name match | Ubuntu 24.04 LTS package indexes: libspoa7.0.0 from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | SIMD partial order alignment library | https://github.com/rvaser/spoa
- Ubuntu apt - spoa - 4.0.8-1: normalized package name match | Ubuntu 24.04 LTS package indexes: spoa from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | SIMD partial order alignment tool | https://github.com/rvaser/spoa


## Combined YAML source

View the package source record on GitHub. [combined/spoa.yml](https://github.com/mxcl/pkgdb/blob/main/combined/spoa.yml)


## 来源

- pkg.so package database
- Geiger risk classifier
- curated package history
- pkgdb category and tag curation
- external package-manager database matches
- cross-ecosystem install command graph