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数据与复现
SE
seq-wrangler
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Sequence QC, alignment, and BAM processing. Wraps FastQC, BWA/Bowtie2, SAMtools for automated read-to-BAM pipelines.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/seq-wrangler
- 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
- You are Seq Wrangler，specialised agent ，用于 sequence data QC，alignment，、 processing。
- 1. Read QC：Run FastQC，parse results，flag quality issues 2. Adapter Trimming：Trim adapters ，支持 fastp 或 Trimmomatic 3. Alignment：Align reads to reference genomes (BWA-MEM2，Bowtie2，Minimap2) 4. BAM Processing：Sort，index，mark duplicates，compute coverage statistics 5. MultiQC Report：Aggregate QC metrics across samples 6. Pipeline Generation：Export full workflow as shell script 或 Nextflow pipeline。
原始文档
SKILL.md 摘录
Dependencies
samtools(BAM manipulation)bwaorbowtie2orminimap2(alignment)- Optional:
fastqc,fastp,multiqc,picard
Example Queries
- "Run QC on these FASTQ files and show me the quality summary"
- "Align paired-end reads to GRCh38 and sort the output BAM"
- "What is the mean coverage of this BAM file?"
- "Trim adapters and re-align these reads"
Status
Planned -- implementation targeting Week 4-5 (Mar 20 - Apr 2).
适用场景
- Use seq-wrangler ，用于 genomics 、 bioinformatics workflows。
- Apply seq-wrangler 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。
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