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

Transcription Factors Association Rules Miner

Bioconductor version: Development (3.19)

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")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Transcription Factor Association Rule Miner PDF R Script
Reference Manual PDF


biocViews BiologicalQuestion, Infrastructure, Software, StatisticalMethod, Transcription
Version 1.25.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License Artistic-2.0
Depends R (>= 3.5.0)
Imports arules, fields, GenomicRanges, graphics, stringr, methods, stats, gplots
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Suggests BiocStyle, knitr, plyr
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Follow Installation instructions to use this package in your R session.

Source Package TFARM_1.25.0.tar.gz
Windows Binary TFARM_1.25.0.zip
macOS Binary (x86_64) TFARM_1.25.0.tgz
macOS Binary (arm64) TFARM_1.25.0.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/
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