# Bio R Bioconductor Toolkit

> R 与 Bioconductor 生信工具 skill。用于 DESeq2、edgeR、limma、tximport、Seurat、SingleCellExperiment、GenomicRanges、clusterProfiler、ComplexHeatmap、RMarkdown/Quarto 等 R 生信分析设计。

- **Type:** Skill
- **Install:** `agentstack add skill-onescience-ai-oneskills-r-bioconductor-toolkit`
- **Verified:** Yes — security-reviewed for prompt injection and unsafe behavior
- **Seller:** [onescience-ai](https://agentstack.voostack.com/s/onescience-ai)
- **Installs:** 0
- **Category:** [Agent Skills](https://agentstack.voostack.com/c/agent-skills)
- **Latest version:** 0.1.0
- **License:** MIT
- **Upstream author:** [onescience-ai](https://github.com/onescience-ai)
- **Source:** https://github.com/onescience-ai/OneSkills/tree/master/skills/onescience-role/assets/bio_domain/analysis-tools/r-bioconductor-toolkit

## Install

```sh
agentstack add skill-onescience-ai-oneskills-r-bioconductor-toolkit
```

Requires the [AgentStack CLI](https://agentstack.voostack.com/docs/cli). Works with Claude Code, Cursor, and any MCP-compatible agent.

## About

# R / Bioconductor 工具

## 使用边界

用于 R 生态的统计、生信对象和可视化。若用户明确要 Python 实现，转到对应 Python tool skill。

## 工具选择

- bulk RNA-seq：DESeq2、edgeR、limma-voom、tximport。
- 单细胞：Seurat、SingleCellExperiment、scDblFinder、SingleR。
- 区间：GenomicRanges、rtracklayer、AnnotationHub。
- 富集：clusterProfiler、fgsea、ReactomePA。
- 可视化：ggplot2、ComplexHeatmap、pheatmap、EnhancedVolcano。
- 报告：RMarkdown、Quarto。

## 交接物

```yaml
tool_family: r-bioconductor
packages:
input_object:
design_formula:
contrast_or_grouping:
annotation_source:
expected_outputs:
execution_entry:
```

## 禁止事项

- DESeq2 输入必须是 raw integer counts。
- Seurat 对象的 assay/layer/slot 要说明清楚。
- 不要在未确认 Bioconductor 版本时依赖新版参数。

## Source & license

This open-source skill is cataloged on AgentStack and links to its original source — we do not rehost the code.

- **Author:** [onescience-ai](https://github.com/onescience-ai)
- **Source:** [onescience-ai/OneSkills](https://github.com/onescience-ai/OneSkills)
- **License:** MIT

Install and usage instructions live in the source repository linked above.

## Pricing

- **Free** — Free

## Security capabilities

Automated source analysis of v0.1.0 — what this tool can access:

- **Network access:** no
- **Filesystem access:** no
- **Shell / process execution:** no
- **Environment & secrets:** no
- **Dynamic code execution:** no

*"Yes" means the capability is present in the source — more access means more to trust, not that it is unsafe.*


## Versions

- **0.1.0** — security scan: passed — Imported from the upstream source.

## Links

- Listing page: https://agentstack.voostack.com/l/skill-onescience-ai-oneskills-r-bioconductor-toolkit
- Seller: https://agentstack.voostack.com/s/onescience-ai
- Browse the marketplace: https://agentstack.voostack.com/browse

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Listed on AgentStack — the marketplace for AI agent skills and MCP servers. Every listing is security-reviewed. Creators keep 70%.