TFARM

DOI: 10.18129/B9.bioc.TFARM    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see TFARM.

Transcription Factors Association Rules Miner

Bioconductor version: 3.9

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>

Installation

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

if (!requireNamespace("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")

 

PDF	R Script	Transcription Factor Association Rule Miner
PDF		Reference Manual
Text		NEWS

Details

biocViews	BiologicalQuestion, Infrastructure, Software, StatisticalMethod, Transcription
Version	1.6.0
In Bioconductor since	BioC 3.6 (R-3.4) (2 years)
License	Artistic-2.0
Depends	R (>= 3.4)
Imports	arules, fields, GenomicRanges, graphics, grDevices, stringr, methods, stats
LinkingTo
Suggests	BiocStyle, knitr, plyr
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	TFARM_1.6.0.tar.gz
Windows Binary	TFARM_1.6.0.zip
Mac OS X 10.11 (El Capitan)	TFARM_1.6.0.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