TFARM

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

Transcription Factors Association Rules Miner


Bioconductor version: Development (3.20)

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 "4.4") 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 1.27.0
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
System Requirements
URL
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Suggests BiocStyle, knitr, plyr
Linking To
Enhances
Depends On Me
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Package Archives

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

Source Package TFARM_1.27.0.tar.gz
Windows Binary TFARM_1.27.0.zip (64-bit only)
macOS Binary (x86_64) TFARM_1.27.0.tgz
macOS Binary (arm64) TFARM_1.27.0.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