macOS
Homebrew已验证 · 100%
brew install perbaselocal Homebrew formula metadata
安装
其他安装命令
概览
软件包摘要
Fast and correct perbase BAM/CRAM analysis
历史
项目历史与用法
perbase is a highly parallel Rust command-line toolkit for computing per-base metrics from BAM and CRAM files.
项目历史
Seth Stadick created perbase as a highly parallel utility for per-position and per-nucleotide analysis of BAM and CRAM alignment data. The project emphasizes scalable concurrency and counting behavior intended to avoid accuracy problems identified in some existing depth tools.
采用历史
The official project documents installation through Bioconda, Cargo, Homebrew, or downloadable release binaries, giving it several routes into genomics workflows.
使用方式
Commonly used to calculate nucleotide-resolved depth, restrict analysis to BED or VCF/BCF positions, account for overlapping mates, and emit compressed tabular output suitable for tabix indexing.
为什么软件包爱好者会关心
It is a Rust-based genomics CLI distributed across both language-specific and scientific package ecosystems. Its explicit treatment of deletions, reference skips, mate overlap, compression, and indexing makes it interesting to users who care about reproducible low-level sequencing metrics.
时间线
- 2023: perbase 0.9.0 was used by the Nano-DMS-MaP project.
- Current project: Available through Bioconda, Cargo, Homebrew, and GitHub releases.
Related projects
- The official README compares aspects of its counting behavior with bam-readcount and sambamba.
- tabix is documented for indexing and querying compressed perbase output.
来源
- Official repository and README: https://github.com/sstadick/perbase
安全态势
风险级别：绿色
narrow executable package without higher-risk signals.
风险分类器
绿色 风险 · 低 置信度 · appliance
原因
- narrow executable package without higher-risk signals
信号
- metadata:no-higher-risk-signals
安装行为
- formula 元数据中未记录 Homebrew post-install 钩子。
- Homebrew bottle 元数据适用于 6 个平台目标。
- 构建元数据列出 3 个构建依赖。
建议审查
在无人值守的代理使用前，请检查该工具是否读取明文凭据、写入远程状态、发布制品或调用插件。
可执行文件
已安装的可执行文件
| 命令 | 类型 | 暴露范围 | 备注 |
|---|---|---|---|
perbase | cli | 全局可执行文件 |
新鲜度
版本和新鲜度
这些信号区分页生成时间、软件包管理器活动和上游发布比较。只有存在证据 URL 和可比较版本时，才会提示版本落后。
页面生成时间2026-09-19
管理器版本1.4.0
管理器更新时间2026-09-13
本地数据OK
上游当前
检测到的最新版本v1.4.0
https://github.com/sstadick/perbase
- OK没有生成新鲜度警告。
安装元数据
软件包元数据
| 软件包键 | brew:perbase |
|---|---|
| 版本 | 1.4.0 |
| 软件包管理器 | Homebrew |
| 软件包管理器页面 | https://formulae.brew.sh/formula/perbase |
| 主页 | https://github.com/sstadick/perbase |
| 仓库 | https://github.com/sstadick/perbase |
| 许可证 | MIT |
| 源码归档 | https://github.com/sstadick/perbase/archive/refs/tags/v1.4.0.tar.gz |
| 最后更新 | 2026-09-13T06:48:36Z |
| Pulse | updated |
| 构建依赖 | cmake, pkgconf, rust |
| macOS 提供的库 | bzip2, curl, llvm |
| Bottle | 可用 (于 arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux) |
| Homebrew post-install | 未定义 |
| 服务 | 未声明 |
注册表事实
源数据库详情
| Source Database | Homebrew formula API |
|---|---|
| Tap | homebrew/core |
| Full Name | perbase |
| Version Scheme | 0 |
| Revision | 0 |
| Head Version | HEAD |
| Bottle Stable Root URL | https://ghcr.io/v2/homebrew/core |
| Deprecated | no |
| Disabled | no |
| Keg Only | no |
| URL Keys |
|
来源线索
由仓库数据生成
此页面由 av-web 从 scripts/generate-pkg-sqlite.py 生成的私有软件包 SQLite 工件提供。
Combined YAML source
View the package source record on GitHub.
使用的来源
- Geiger risk classifier
- cross-ecosystem install command graph
- curated package history
- package relationship graph
- package version freshness
- package-page enrichment
- pkg.so package database
- pkgdb category and tag curation