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 |
| 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-release: caRpools_0.83.zip, r-oldrel: caRpools_0.83.zip |
| macOS binaries: | r-release: caRpools_0.83.tgz, r-oldrel: not available |
| Old sources: | caRpools archive |
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