fabia

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

FABIA: Factor Analysis for Bicluster Acquisition

Bioconductor version: Development (3.20)

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>

Citation (from within R, enter citation("fabia")):

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("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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Clustering, DifferentialExpression, Microarray, MultipleComparison, Software, StatisticalMethod, Visualization
Version	2.51.0
In Bioconductor since	BioC 2.7 (R-2.12) (14 years)
License	LGPL (>= 2.1)
Depends	R (>= 3.6.0), Biobase
Imports	methods, graphics, grDevices, stats, utils
System Requirements
URL	http://www.bioinf.jku.at/software/fabia/fabia.html

Suggests
Linking To
Enhances
Depends On Me	hapFabia, RcmdrPlugin.BiclustGUI, superbiclust
Imports Me	miRSM, mosbi, BcDiag
Suggests Me	fabiaData
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	fabia_2.51.0.tar.gz
Windows Binary (x86_64)	fabia_2.51.0.zip (64-bit only)
macOS Binary (x86_64)	fabia_2.51.0.tgz
macOS Binary (arm64)	fabia_2.51.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/fabia
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/fabia
Bioc Package Browser	https://code.bioconductor.org/browse/fabia/
Package Short Url	https://bioconductor.org/packages/fabia/
Package Downloads Report	Download Stats