caRpools: an R package for exploratory data analysis and documentation of pooled CRISPR/Cas9 screens.
BACKGROUND
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.


RESULTS
The CRISPR-AnalyzeR for pooled screens (caRpools) is 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 documentation and generation of standardized analysis reports.


METHODS
caRpools, manuals and an open virtual appliance are available at http://github.com/boutroslab/caRpools.
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Jan
J
Winter
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Marco
M
Breinig
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Florian
F
Heigwer
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Dirk
D
Brügemann
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Svenja
S
Leible
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Oliver
O
Pelz
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and Department of Medicine II, University Hospital Mannheim, Medical Faculty Mannheim, Heidelberg University, Mannheim, Germany.
Tianzuo
T
Zhan
German Cancer Research Center (DKFZ), Division Signaling and Functional Genomics and Heidelberg University, Heidelberg, Germany and.
Michael
M
Boutros
D064113:CRISPR-Cas Systems; D004282:Documentation; D000072669:Gene Editing; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing; D012984:Software