Genetic screens by CRISPR/Cas9-mediated genome engineering have become a powerful tool for functional genomics. However, there is currently a lack of end-to-end software pipelines to analyze CRISPR/Cas9 screens based on next generation sequencing. Source text: Winter et al.,…
Web app
G T A T C G C T A CRISPR-enabled… CRISPR-enabled trackable genome engineering

CREATE CRISPR-enabled trackable genome engineering

Links each guide RNA to homologous repair cassettes that both edit loci and…

Links each guide RNA to homologous repair cassettes that both edit loci and function as barcodes to track genotype-phenotype relationships. CREATE combines automated design of CREATE cassettes…

G T A T C G C T A gRNA Identification gRNA Identification

grID gRNA Identification

Provides a universal CRISPR annotation system. grID is an extensive compilation…

Provides a universal CRISPR annotation system. grID is an extensive compilation of gRNA properties including sequence and variations, thermodynamic parameters, off-target analyses, and alternative…

Desktop app
G T A T C G C T A CRISPR-AnalyzeR for… CRISPR-AnalyzeR for pooled screens

caRpools CRISPR-AnalyzeR for pooled screens

An R package for exploratory data analysis that provides a complete workflow to…

An R package for exploratory data analysis that provides a complete workflow to analyze CRISPR/Cas9 screens. To further support the analysis of large-scale screens, caRpools integrates screening…

Desktop app
G T A T C G C T A Model-based Analysis… Model-based Analysis of Genome-wide CRISPR/Cas9…

MAGeCK Model-based Analysis of Genome-wide CRISPR/Cas9 Knockout

Identifies positively and negatively selected sgRNAs and genes in genome-scale…

Identifies positively and negatively selected sgRNAs and genes in genome-scale CRISPR/Cas9 knockout experiments. It consists of four steps: read count normalization, mean-variance modeling, sgRNA…

Desktop app
G T A T C G C T A Screening Bayesian… Screening Bayesian Evaluation and Analysis Method

ScreenBEAM Screening Bayesian Evaluation and Analysis Method

A hierarchical modelling algorithm within Bayesian framework for meta-analysis…

A hierarchical modelling algorithm within Bayesian framework for meta-analysis of large-scale FG screens. This novel multi-probe approach performs more robustly than previously established analysis…

Desktop app
G T A T C G C T A HiTSelect HiTSelect

HiTSelect

A comprehensive analysis pipeline for rigorously selecting screen hits and…

A comprehensive analysis pipeline for rigorously selecting screen hits and identifying functionally relevant genes and pathways by addressing off-target effects, controlling for variance in both gene…

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