CRISPRcleanR

CRISPRcleanR corrects bias in genome-wide pooled CRISPR-Cas9 screens by detecting and correcting biased guide-level responses associated with copy-number-amplified genomic regions to reduce false positives and improve identification of essential genes.

Key Features:

• Bias Correction: An unsupervised computational method detects and corrects biased responses to CRISPR-Cas9 targeting, reducing false-positive signals while maintaining sensitivity for essential gene detection.
• Data Processing: Processes genome-wide pooled CRISPR-Cas9 screen readouts to enable downstream analysis and correction.
• Gene-Level Summaries: Computes detailed gene-level essentiality summaries with associated statistical scores.
• Library Support: Supports analysis across multiple CRISPR guide RNA libraries.

Scientific Applications:

• Essential Gene Identification: Mitigates false positives in copy-number-amplified regions to improve accuracy of essential gene calls from CRISPR-Cas9 screens.
• Genetic Dependency and Functional Genomics: Enables more reliable identification of genetic dependencies in functional genomics studies using pooled CRISPR-Cas9 screening data.

Methodology:

An unsupervised computational approach detects and corrects biased guide-level responses to CRISPR-Cas9 targeting and computes gene-level essentiality summaries with associated statistical scores.