fabia

DOI: 10.18129/B9.bioc.fabia    

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

FABIA: Factor Analysis for Bicluster Acquisition

Bioconductor version: 3.9

Biclustering by "Factor Analysis for Bicluster Acquisition" (FABIA). FABIA is a model-based technique for biclustering, that is clustering rows and columns simultaneously. Biclusters are found by factor analysis where both the factors and the loading matrix are sparse. FABIA is a multiplicative model that extracts linear dependencies between samples and feature patterns. It captures realistic non-Gaussian data distributions with heavy tails as observed in gene expression measurements. FABIA utilizes well understood model selection techniques like the EM algorithm and variational approaches and is embedded into a Bayesian framework. FABIA ranks biclusters according to their information content and separates spurious biclusters from true biclusters. The code is written in C.

Author: Sepp Hochreiter <hochreit at bioinf.jku.at>

Maintainer: Andreas Mitterecker <mitterecker at bioinf.jku.at>

Installation

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

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

BiocManager::install("fabia")

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("fabia")

 

PDF	R Script	FABIA: Manual for the R package
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, DifferentialExpression, Microarray, MultipleComparison, Software, StatisticalMethod, Visualization
Version	2.30.0
In Bioconductor since	BioC 2.7 (R-2.12) (9 years)
License	LGPL (>= 2.1)
Depends	R (>= 3.6.0), Biobase
Imports	methods, graphics, grDevices, stats, utils
LinkingTo
Suggests
SystemRequirements
Enhances
URL	http://www.bioinf.jku.at/software/fabia/fabia.html
Depends On Me	hapFabia
Imports Me	miRSM
Suggests Me	fabiaData
Links To Me
Build Report

Package Archives

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

Source Package	fabia_2.30.0.tar.gz
Windows Binary	fabia_2.30.0.zip
Mac OS X 10.11 (El Capitan)	fabia_2.30.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/fabia
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/fabia
Package Short Url	https://bioconductor.org/packages/fabia/
Package Downloads Report	Download Stats