rTRM
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see rTRM.
Identification of transcriptional regulatory modules from PPI networks
Bioconductor version: 3.9
rTRM identifies transcriptional regulatory modules (TRMs) from protein-protein interaction networks.
Author: Diego Diez
Maintainer: Diego Diez <diego10ruiz at gmail.com>
Citation (from within R, enter
citation("rTRM")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("rTRM")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("rTRM")| Introduction to rTRM | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneRegulation, GraphAndNetwork, Network, Software, Transcription |
| Version | 1.22.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (10.5 years) |
| License | GPL-3 |
| Depends | R (>= 2.10), igraph (>= 1.0) |
| Imports | AnnotationDbi, DBI, RSQLite |
| System Requirements | |
| URL | https://github.com/ddiez/rTRM |
| Bug Reports | https://github.com/ddiez/rTRM/issues |
See More
| Suggests | RUnit, BiocGenerics, MotifDb, graph, PWMEnrich, biomaRt, knitr, Biostrings, BSgenome.Mmusculus.UCSC.mm8.masked, org.Hs.eg.db, org.Mm.eg.db, ggplot2 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | rTRMui |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | rTRM_1.22.0.tar.gz |
| Windows Binary | rTRM_1.22.0.zip |
| Mac OS X 10.11 (El Capitan) | rTRM_1.22.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/rTRM |
| Source Repository (Developer Access) | git clone [email protected]:packages/rTRM |
| Bioc Package Browser | https://code.bioconductor.org/browse/rTRM/ |
| Package Short Url | https://bioconductor.org/packages/rTRM/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |