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TFARM

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

Transcription Factors Association Rules Miner

Bioconductor version: Development (3.18)

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 "4.3") and enter: 

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

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

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 1.23.0
In Bioconductor since BioC 3.6 (R-3.4) (6 years)
License Artistic-2.0
Depends R (>= 3.5.0)
Imports arules, fields, GenomicRanges, graphics, stringr, methods, stats, gplots
Linking To
Suggests BiocStyle, knitr, plyr
System Requirements
Enhances
URL
See More
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_1.23.0.tar.gz
Windows Binary TFARM_1.23.0.zip
macOS Binary (x86_64) TFARM_1.23.0.tgz
macOS Binary (arm64) TFARM_1.23.0.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