name: mageck-crispr-analyzer description: MAGeCK CRISPR screen analysis skill for gene essentiality scoring allowed-tools:
- Read
- Write
- Glob
- Grep
- Edit
- WebFetch
- WebSearch
- Bash
metadata:
version: "1.0"
category: bioinformatics
tags:
- specialized
- crispr
- screening
- essentiality
MAGeCK CRISPR Analyzer Skill
Purpose
Provide MAGeCK CRISPR screen analysis for gene essentiality scoring.
Capabilities
- Guide read counting
- Normalization and QC
- Gene-level analysis
- Pathway enrichment
- MLE model for complex designs
- Visualization outputs
Usage Guidelines
- Count guides accurately from sequencing data
- Normalize counts appropriately
- Calculate gene-level scores
- Enrich for biological pathways
- Use MLE for complex experimental designs
- Generate informative visualizations
Dependencies
- MAGeCK
- BAGEL
- CRISPResso2
Process Integration
- CRISPR Screen Analysis (crispr-screen-analysis)