CRISPR AnalyzeR for Pooled CRISPR Screens

CRISPR-Analyzer for pooled CRISPR screens (caRpools) provides an end-to-end analysis of CRISPR screens including quality control, hit candidate analysis, visualization and automated report generation using R markdown. Needs MAGeCK ( http://sourceforge.net/p/mageck/wiki/Home/), bowtie2 for all functions. CRISPR (clustered regularly interspaced short palindromic repeats) is a method to perform genome editing. See < https://en.wikipedia.org/wiki/CRISPR> for more information on CRISPR.


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Reference manual

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install.packages("caRpools")

0.83 by Jan Winter, a year ago


http://www.crispr-analyzer.de, https://github.com/boutroslab/caRpools


Report a bug at https://github.com/boutroslab/caRpools


Browse source code at https://github.com/cran/caRpools


Authors: Jan Winter, Florian Heigwer


Documentation:   PDF Manual  


GPL license


Imports rmarkdown, VennDiagram, DESeq2, sm, biomaRt, seqinr, scatterplot3d, xlsx

Suggests BiocGenerics, knitr, stringi

System requirements: MAGeCK (=0.51, from http://sourceforge.net/p/mageck/wiki/Home/), bowtie2 (http://bowtie-bio.sourceforge.net/bowtie2/index.shtml)


See at CRAN