To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("gCrisprTools")

In most cases, you don't need to download the package archive at all.

gCrisprTools

DOI: 10.18129/B9.bioc.gCrisprTools    

Suite of Functions for Pooled Crispr Screen QC and Analysis

Bioconductor version: Release (3.5)

Set of tools for evaluating pooled high-throughput screening experiments, typically employing CRISPR/Cas9 or shRNA expression cassettes. Contains methods for interrogating library and cassette behavior within an experiment, identifying differentially abundant cassettes, aggregating signals to identify candidate targets for empirical validation, hypothesis testing, and comprehensive reporting.

Author: Russell Bainer, Dariusz Ratman, Pete Haverty, Steve Lianoglou

Maintainer: Russell Bainer <haverty.peter at gene.com>

Citation (from within R, enter citation("gCrisprTools")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("gCrisprTools")

Documentation

HTML R Script Example_Workflow_gCrisprTools
HTML R Script gCrisprTools_Vignette
PDF   Reference Manual
Text   NEWS

Details

biocViews BiomedicalInformatics, CRISPR, CellBiology, DifferentialExpression, ExperimentalDesign, FunctionalGenomics, GeneSetEnrichment, Genetics, MultipleComparison, Normalization, Pharmacogenetics, Pharmacogenomics, PooledScreens, Preprocessing, QualityControl, RNASeq, Regression, Software, SystemsBiology, Visualization
Version 1.4.0
In Bioconductor since BioC 3.4 (R-3.3) (1 year)
License Artistic-2.0
Depends R (>= 3.3)
Imports Biobase, limma, RobustRankAggreg, ggplot2, PANTHER.db, rmarkdown, grDevices, graphics, stats, utils, parallel
LinkingTo
Suggests edgeR, knitr, grid, AnnotationDbi, org.Mm.eg.db, org.Hs.eg.db, RUnit, BiocGenerics
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source gCrisprTools_1.4.0.tar.gz
Windows Binary gCrisprTools_1.4.0.zip
Mac OS X 10.11 (El Capitan) gCrisprTools_1.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/gCrisprTools
Package Short Url http://bioconductor.org/packages/gCrisprTools/
Package Downloads Report Download Stats

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