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

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. The CRISPR-AnalyzeR for pooled screens (caRpools) is...

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Bibliographic Details
Published inBioinformatics Vol. 32; no. 4; pp. 632 - 634
Main Authors Winter, Jan, Breinig, Marco, Heigwer, Florian, Brügemann, Dirk, Leible, Svenja, Pelz, Oliver, Zhan, Tianzuo, Boutros, Michael
Format Journal Article
LanguageEnglish
Published England 15.02.2016
Subjects
Bioinformatics
Car pools
CRISPR-Cas Systems
Data processing
Documentation
Gene Editing
Genetics
Genome
High-Throughput Nucleotide Sequencing
Manuals
Packages
Screens
Software
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Summary: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. 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. caRpools, manuals and an open virtual appliance are available at http://github.com/boutroslab/caRpools.
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ISSN:1367-4803
1367-4811
1460-2059
DOI:10.1093/bioinformatics/btv617