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bio-crispr-screens-mageck-analysis
维护者 FreedomIntelligence · 最近更新 2026年4月1日
bio-crispr-screens-mageck-analysis：MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout) ，用于 pooled CRISPR screen analysis。 Covers count normalization，gene ranking，、 pathway analysis。 适合在identifying essential genes，drug targets，或 resistance mechanisms ，面向 dropout 或 enrichment screens时使用。
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-crispr-screens-mageck-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：mageck count → mageck test ，用于 standard analysis。
- CLI：mageck mle ，用于 multi-condition designs。
- 分析 my pooled CRISPR screen ，支持 MAGeCK" → Count sgRNA reads，normalize across samples，、 rank genes by enrichment 或 depletion ，使用 MAGeCK robust rank aggregation algorithm. CLI：mageck count → mageck test ，用于 standard analysis CLI：mageck mle ，用于 multi-condition designs。
- mageck count \ -l 库.csv \ -n experiment \ --sample-label Day0，Treated1，Treated2，Control1，Control2 \ --fastq Day0.fastq.gz Treated1.fastq.gz Treated2.fastq.gz Control1.fastq.gz Control2.fastq.gz \ --norm-method median。
原始文档
SKILL.md 摘录
Count sgRNAs from FASTQ
Goal: Quantify sgRNA representation from raw sequencing data.
Approach: Map FASTQ reads to the sgRNA library sequences with MAGeCK count, producing a normalized count matrix and QC summary across all samples.
## library.csv (tab-separated)
sgRNA_ID Gene Sequence
BRCA1_1 BRCA1 ATGGATTTATCTGCTCTTCG
BRCA1_2 BRCA1 CAGCAGATACTTGATGCATC
TP53_1 TP53 CCATTGTTCAATATCGTCCG
...
MAGeCK Test (RRA Algorithm)
Goal: Identify genes significantly enriched or depleted between treatment and control conditions.
Approach: Run MAGeCK test with robust rank aggregation, which ranks sgRNAs by fold change, tests whether per-gene sgRNA rankings deviate from uniform, and reports gene-level significance with FDR correction.
适用场景
- 适合在identifying essential genes，drug targets，或 resistance mechanisms ，面向 dropout 或 enrichment screens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
- screen-qc - Quality control before MAGeCK
- hit-calling - Alternative hit calling methods
- pathway-analysis/gsea - Downstream enrichment analysis
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