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数据与复现
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bio-tcr-bcr-analysis-mixcr-analysis
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Perform V(D)J alignment and clonotype assembly from TCR-seq or BCR-seq data using MiXCR. Use when processing raw immune repertoire sequencing data to identify clonotypes and their frequencies.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-tcr-bcr-analysis-mixcr-analysis
- 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
- CLI：mixcr analyze ，用于 end-to-end TCR/BCR extraction 、 clonotype assembly。
- 提取 TCR/BCR clonotypes ，面向 my sequencing data" → Assemble immune receptor sequences ，面向 raw reads，identify V(D)J gene segments，、 generate clonotype tables ，用于 repertoire analysis. CLI：mixcr analyze ，用于 end-to-end TCR/BCR extraction 、 clonotype assembly。
- Goal：Run end-to-end V(D)J alignment 、 clonotype assembly ，面向 raw FASTQ files in single command。
- Approach：Use MiXCR's preset-based analyze command which chains alignment，assembly，、 export steps automatically。
原始文档
SKILL.md 摘录
Step-by-Step Workflow
Goal: Process immune repertoire data through individual alignment, refinement, assembly, and export stages for fine-grained control.
Approach: Chain MiXCR CLI steps sequentially: align reads to V(D)J references, refine UMIs and sort, assemble clonotypes, then export results.
Preset Protocols
| Protocol | Use Case |
|---|---|
generic-tcr-amplicon | TCR amplicon sequencing |
generic-bcr-amplicon | BCR amplicon sequencing |
generic-tcr-amplicon-umi | TCR amplicon with UMIs |
rnaseq-tcr | TCR extraction from bulk RNA-seq |
rnaseq-bcr | BCR extraction from bulk RNA-seq |
10x-vdj-tcr | 10x Genomics TCR enrichment |
10x-vdj-bcr | 10x Genomics BCR enrichment |
takara-human-tcr-v2 | Takara SMARTer kit |
Species Support
mixcr align --species human ...
mixcr align --species mmu ...
适用场景
- 适合在processing raw immune repertoire sequencing data to identify clonotypes 、 their frequencies时使用。
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
- vdjtools-analysis - Downstream diversity analysis
- scirpy-analysis - Single-cell VDJ integration
- repertoire-visualization - Visualize MiXCR output
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