TFARM

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see TFARM.

Transcription Factors Association Rules Miner


Bioconductor version: 3.7

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 "3.5") 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 1.2.0
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, grDevices, stringr, methods, stats
System Requirements
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Suggests BiocStyle, knitr, plyr
Linking To
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Depends On Me
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Package Archives

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

Source Package TFARM_1.2.0.tar.gz
Windows Binary TFARM_1.2.0.zip
Mac OS X 10.11 (El Capitan) TFARM_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TFARM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TFARM
Package Short Url https://bioconductor.org/packages/TFARM/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive