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数据与复现
BI
bio-workflows-clip-pipeline
维护者 FreedomIntelligence · 最近更新 2026年4月1日
CLIP-seq: peak calling → binding site annotation → motif discovery.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-workflows-clip-pipeline
- 维护者
- FreedomIntelligence
- 许可
- MIT
- 最近更新
- 2026年4月1日
技能摘要
来自 SKILL.md 的关键信息
核心说明
- fastqc reads.fastq.gz -o qc_pre/。
原始文档
SKILL.md 摘录
CLIP Method Variants
| Method | UMI | Crosslink Site | Adapter |
|---|---|---|---|
| HITS-CLIP | Optional | Deletions | 3' adapter |
| PAR-CLIP | Optional | T→C mutations | 3' adapter |
| iCLIP | Required | 5' of read | 3' adapter |
| eCLIP | Required | 5' of read | 3' adapter |
eCLIP (10nt UMI at 5' end)
umi_tools extract
--stdin=reads.fastq.gz
--bc-pattern=NNNNNNNNNN
--stdout=extracted.fastq.gz
--log=umi_extract.log
iCLIP (5nt experimental barcode + 5nt UMI)
umi_tools extract
--stdin=reads.fastq.gz
--bc-pattern=NNNNNXXXXX
--stdout=extracted.fastq.gz
适用场景
- Use bio-workflows-clip-pipeline ，用于 genomics 、 bioinformatics workflows。
- Apply bio-workflows-clip-pipeline to sequencing，variant，或 omics analysis tasks。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
上游相关技能
- clip-seq/clip-preprocessing - Detailed preprocessing
- clip-seq/clip-alignment - Alignment optimization
- clip-seq/clip-peak-calling - Peak caller comparison
- clip-seq/binding-site-annotation - Feature annotation
- clip-seq/clip-motif-analysis - Motif discovery
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