fabia

FABIA: Factor Analysis for Bicluster Acquisition

Bioconductor version: 2.8

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++ based on Rcpp package.

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

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

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("fabia")

To cite this package in a publication, start R and enter:

    citation("fabia")

Documentation

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

Details

biocViews Bioinformatics, Statistics, Microarray, DifferentialExpression, MultipleComparisons, Clustering, Visualization
Depends R (>= 2.8.0), methods
Imports methods, graphics
Suggests utils
System Requirements
License LGPL (>= 2.1)
URL http://www.bioinf.jku.at/software/fabia/fabia.html
Depends On Me
Imports Me
Suggests Me
Version 1.4.0
Since Bioconductor 2.7 (R-2.12)

Package Downloads

Package Source fabia_1.4.0.tar.gz
Windows Binary fabia_1.4.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary fabia_1.4.0.tgz
Package Downloads Report Download Stats

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