fabia

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see fabia.

FABIA: Factor Analysis for Bicluster Acquisition


Bioconductor version: 3.14

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 "4.1") and enter:


if (!require("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")
FABIA: Manual for the R package PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Clustering, DifferentialExpression, Microarray, MultipleComparison, Software, StatisticalMethod, Visualization
Version 2.40.0
In Bioconductor since BioC 2.7 (R-2.12) (13.5 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
See More
Suggests
Linking To
Enhances
Depends On Me hapFabia
Imports Me miRSM, mosbi
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_2.40.0.tar.gz
Windows Binary fabia_2.40.0.zip
macOS 10.13 (High Sierra) fabia_2.40.0.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
Old Source Packages for BioC 3.14 Source Archive