crispr-screen-analysis

Yes, you can perform CRISPR pathway enrichment using GSEA. This Skill automatically maps identified screen hits to biological pathways using gseapy, helping you interpret the functional impact of genetic perturbations on your phenotypic drivers.

For CRISPR screen QC, this Skill evaluates sgRNA library representation, replicate correlation, and distribution metrics. This ensures your pooled screen experimental integrity before proceeding with downstream statistical hit calling.

Yes, MAGeCK works with Python for genome-wide CRISPR knockout screen analysis. This Skill requires MAGeCK for count processing and hit calling, while leveraging Python-based tools like pandas, numpy, and matplotlib for visualization.

Yes, you can use this CRISPR screen pipeline for activation and interference screens. The Skill supports genome-wide knockout, activation, and interference screens across various experimental designs to identify phenotypic hits.

You need raw FASTQ files to start CRISPR screen analysis with MAGeCK. The Skill automates the bioinformatics pipeline to process these raw sequencing files into actionable biological insights and gene-level essentiality reports.