caRpools: 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.

Version: 0.83
Depends: R (≥ 3.1.0)
Imports: rmarkdown, VennDiagram, DESeq2, sm, biomaRt, seqinr, scatterplot3d, xlsx
Suggests: BiocGenerics, knitr, stringi
Published: 2015-12-06
Author: Jan Winter, Florian Heigwer
Maintainer: Jan Winter <jan.winter at dkfz-heidelberg.de>
BugReports: https://github.com/boutroslab/caRpools
License: GPL-2 | GPL-3 [expanded from: GPL]
URL: http://www.crispr-analyzer.de, https://github.com/boutroslab/caRpools
NeedsCompilation: no
SystemRequirements: MAGeCK (=0.51, from http://sourceforge.net/p/mageck/wiki/Home/), bowtie2 (http://bowtie-bio.sourceforge.net/bowtie2/index.shtml)
CRAN checks: caRpools results

Downloads:

Reference manual: caRpools.pdf
Vignettes: The caRpools package - Analysis of pooled CRISPR Screens
Package source: caRpools_0.83.tar.gz
Windows binaries: r-devel: caRpools_0.83.zip, r-devel-gcc8: caRpools_0.83.zip, r-release: caRpools_0.83.zip, r-oldrel: caRpools_0.83.zip
OS X binaries: r-release: not available, r-oldrel: caRpools_0.83.tgz
Old sources: caRpools archive

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