To install this package, start R and enter:

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

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

gespeR

DOI: 10.18129/B9.bioc.gespeR    

Gene-Specific Phenotype EstimatoR

Bioconductor version: Release (3.5)

Estimates gene-specific phenotypes from off-target confounded RNAi screens. The phenotype of each siRNA is modeled based on on-targeted and off-targeted genes, using a regularized linear regression model.

Author: Fabian Schmich

Maintainer: Fabian Schmich <fabian.schmich at bsse.ethz.ch>

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

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("gespeR")

 

PDF R Script An R package for deconvoluting off-target confounded RNAi screens
PDF   Reference Manual

Details

biocViews CellBasedAssays, GeneTarget, Preprocessing, Regression, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 3.1 (R-3.2) (2.5 years)
License GPL-3
Depends methods, graphics, ggplot2, R (>= 2.10)
Imports Matrix, glmnet, cellHTS2, Biobase, biomaRt, doParallel, parallel, foreach, reshape2, dplyr
LinkingTo
Suggests knitr
SystemRequirements
Enhances
URL http://www.cbg.ethz.ch/software/gespeR
Depends On Me
Imports Me eiR
Suggests Me
Build Report  

Package Archives

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

Package Source gespeR_1.8.0.tar.gz
Windows Binary gespeR_1.8.0.zip
Mac OS X 10.11 (El Capitan) gespeR_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/gespeR
Package Short Url http://bioconductor.org/packages/gespeR/
Package Downloads Report Download Stats

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