To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SRGnet")
In most cases, you don't need to download the package archive at all.
SRGnet
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see SRGnet.
SRGnet An R package for studying synergistic response genes from transcriptomics data
Bioconductor version: 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 | |
| Reference Manual |
Details
| biocViews | Regression, Software, StatisticalMethod |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (0.5 years) |
| 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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