gCrisprTools

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see gCrisprTools.

Suite of Functions for Pooled Crispr Screen QC and Analysis

Bioconductor version: 3.6

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, Steve Lianoglou, Peter Haverty

Maintainer: Peter Haverty <haverty.peter at gene.com>

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

Installation

To install this package, start R (version "3.4") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("gCrisprTools")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

Version 1.6.0

In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)

License Artistic-2.0

Depends R (>= 3.3)

Imports Biobase, limma, RobustRankAggreg, ggplot2, PANTHER.db, rmarkdown, grDevices, graphics, stats, utils, parallel

System Requirements

URL

Suggests edgeR, knitr, grid, AnnotationDbi, org.Mm.eg.db, org.Hs.eg.db, RUnit, BiocGenerics

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me

Links To Me

Build Report Build Report

Package Archives

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

Source Package gCrisprTools_1.6.0.tar.gz

Windows Binary gCrisprTools_1.6.0.zip

Mac OS X 10.11 (El Capitan) gCrisprTools_1.6.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/gCrisprTools

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/gCrisprTools

Package Short Url https://bioconductor.org/packages/gCrisprTools/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.6 Source Archive