# Bio Data Foundation

> 生物信息数据基础设施范畴路由。用于序列文件、FASTQ 质控、BAM/CRAM/SAM、VCF/BCF/BED/GFF、公共数据下载接入、样本表和元数据设计等底层数据任务，选择具体 data-foundation skill 并生成交接物。

- **Type:** Skill
- **Install:** `agentstack add skill-onescience-ai-oneskills-data-foundation`
- **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/data-foundation

## Install

```sh
agentstack add skill-onescience-ai-oneskills-data-foundation
```

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

## About

# 生信数据基础设施范畴路由

当用户任务主要是整理输入数据、解析文件格式、生成样本表、做基础 QC 或准备下游 workflow 输入时，使用本范畴。

## 具体 skill 路由

- FASTA/FASTQ/GenBank/GFF、序列统计、反向互补、翻译、格式转换：读取 `./sequence-io-manipulation/SKILL.md`
- FASTQ 质量控制、adapter trimming、MultiQC：读取 `./read-qc-trimming/SKILL.md`
- SAM/BAM/CRAM、sort/index/filter、比对后 QC：读取 `./alignment-bam-processing/SKILL.md`
- VCF/BCF/BED/GTF/GFF、interval overlap、坐标系：读取 `./variant-interval-files/SKILL.md`
- GEO/SRA/ENA/公共 FASTQ 和矩阵接入：读取 `./public-data-ingestion/SKILL.md`
- samplesheet、metadata、contrast、batch、数据字典：读取 `./samplesheet-metadata-design/SKILL.md`
- count matrix、feature table、gene ID mapping、metadata join、sparse matrix、AnnData/loom/zarr 交接：读取 `./expression-matrix-feature-tables/SKILL.md`

## 交接规则

输出时至少整理：

- `data_object`
- `format`
- `organism_or_taxon`
- `reference_build`
- `path_or_accession`
- `validation_checks`
- `downstream_workflow`
- `execution_entry`

## 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-data-foundation
- 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%.