TFARM

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see TFARM.

Transcription Factors Association Rules Miner


Bioconductor version: 3.10

It searches for relevant associations of transcription factors with a transcription factor target, in specific genomic regions. It also allows to evaluate the Importance Index distribution of transcription factors (and combinations of transcription factors) in association rules.

Author: Liuba Nausicaa Martino, Alice Parodi, Gaia Ceddia, Piercesare Secchi, Stefano Campaner, Marco Masseroli

Maintainer: Liuba Nausicaa Martino <liuban.martino at gmail.com>

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

Installation

To install this package, start R (version "3.6") and enter:


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

BiocManager::install("TFARM")

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("TFARM")
Transcription Factor Association Rule Miner PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews BiologicalQuestion, Infrastructure, Software, StatisticalMethod, Transcription
Version 1.8.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License Artistic-2.0
Depends R (>= 3.4)
Imports arules, fields, GenomicRanges, graphics, stringr, methods, stats, gplots
System Requirements
URL
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Suggests BiocStyle, knitr, plyr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package TFARM_1.8.0.tar.gz
Windows Binary TFARM_1.8.0.zip
Mac OS X 10.11 (El Capitan) TFARM_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TFARM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TFARM
Bioc Package Browser https://code.bioconductor.org/browse/TFARM/
Package Short Url https://bioconductor.org/packages/TFARM/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive