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biocLite("SRGnet")

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SRGnet

 

   

SRGnet An R package for studying synergistic response genes from transcriptomics data

Bioconductor version: Release (3.4)

We developed SRMnet to analyze synergistic regulatory mechanisms in transcriptome profiles that act to enhance the overall cell response to combination of mutations, drugs or environmental exposure. This package can be used to identify regulatory modules downstream of synergistic response genes, prioritize synergistic regulatory genes that may be potential intervention targets, and contextualize gene perturbation experiments.

Author: Isar Nassiri [aut, cre], Matthew McCall [aut, cre]

Maintainer: Isar Nassiri <isar_nassiri at urmc.rochester.edu>

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

Installation

To install this package, start R and enter:

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

Documentation

HTML SRGnet: An R package for studying synergistic response genes from transcriptomics data
PDF   Reference Manual

Details

biocViews Regression, Software, StatisticalMethod
Version 1.0.0
In Bioconductor since BioC 3.4 (R-3.3) (< 6 months)
License GPL-2
Depends R (>= 3.2.2), EBcoexpress, MASS, igraph, pvclust (>= 2.0-0), RedeR, gRain (>= 1.2-5), gbm (>= 2.1.1), limma, DMwR (>= 0.4.1), matrixStats
Imports
LinkingTo
Suggests knitr, rmarkdown
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 SRGnet_1.0.0.tar.gz
Windows Binary SRGnet_1.0.0.zip
Mac OS X 10.9 (Mavericks) SRGnet_1.0.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/SRGnet/tree/release-3.4
Package Short Url http://bioconductor.org/packages/SRGnet/
Package Downloads Report Download Stats

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