PerturbSeqEngine

Perturb-seq analysis engine for CRISPR perturbation effect quantification, gene program discovery, and causal gene identification.

Features

• CRISPR perturbation transcriptional effect scoring
• NMF-based gene program discovery from perturbation responses
• Essential gene identification from viability screens
• Perturbation specificity and on-target effect quantification
• Causal gene network inference from perturbation data

Results

5000 cells, 100 perturbations; Essential=20%; 8 NMF programs; Specificity=0.990

Usage

pip install numpy scipy matplotlib
python perturb_seq_engine.py

Tags

perturb-seq, crispr-perturbation, gene-program, perturbation-response, causal-gene