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rTRM

This is the development version of rTRM; for the stable release version, see rTRM.

Identification of Transcriptional Regulatory Modules from Protein-Protein Interaction Networks


Bioconductor version: Development (3.19)

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 "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneRegulation, GraphAndNetwork, Network, Software, Transcription
Version 1.41.0
In Bioconductor since BioC 2.13 (R-3.0) (10.5 years)
License GPL-3
Depends R (>= 2.10), igraph (>= 1.0)
Imports methods, 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, Biostrings, BSgenome.Mmusculus.UCSC.mm8.masked, org.Hs.eg.db, org.Mm.eg.db, ggplot2, BiocStyle, knitr, rmarkdown
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_1.41.0.tar.gz
Windows Binary rTRM_1.41.0.zip
macOS Binary (x86_64) rTRM_1.41.0.tgz
macOS Binary (arm64) rTRM_1.41.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/rTRM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rTRM
Bioc Package Browser https://code.bioconductor.org/browse/rTRM/
Package Short Url https://bioconductor.org/packages/rTRM/
Package Downloads Report Download Stats