CHOPCHOP

Use when working with BE-Hive, the Shen lab base-editing outcome predictor distributed through the `be_predict_bystander` repository and the crisprbehive.design web app. BE-Hive predicts bystander edi

3 shared topics • 1 shared operation

Use when correcting copy-number bias in CRISPR-Cas9 essentiality screens with CERES. Handles guide-level depletion data from Project Achilles or custom CRISPR knockout screens, integrating segmented c

3 shared topics • 1 shared operation

CRISPRscan — sequence-based scoring algorithm for predicting CRISPR/Cas9 sgRNA on-target efficiency. Uses a linear regression model trained on zebrafish injection data to score 20-mer guide sequences

3 shared topics • 1 shared operation

BAGEL2 — Bayesian Analysis of Gene Essentiality v2 for identifying essential genes from CRISPR/Cas9 knockout screens. Calculates Bayes Factors from fold-change distributions using reference sets of co

3 shared topics

MAGeCK-VISPR — comprehensive CRISPR screen analysis framework combining MAGeCK statistical testing (RRA and MLE algorithms) with VISPR interactive visualization. Supports sgRNA count generation from F

2 shared topics • 1 shared operation