To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

MineICA

 

Analysis of an ICA decomposition obtained on genomics data

Bioconductor version: Release (3.1)

The goal of MineICA is to perform Independent Component Analysis (ICA) on multiple transcriptome datasets, integrating additional data (e.g molecular, clinical and pathological). This Integrative ICA helps the biological interpretation of the components by studying their association with variables (e.g sample annotations) and gene sets, and enables the comparison of components from different datasets using correlation-based graph.

Author: Anne Biton

Maintainer: Anne Biton <anne.biton at gmail.com>

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

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("MineICA")

 

PDF R Script MineICA: Independent component analysis of genomic data
PDF   Reference Manual

Details

biocViews MultipleComparison, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 2.12 (R-3.0) (2.5 years)
License GPL-2
Depends R (>= 2.10), methods, BiocGenerics(>= 0.13.8), Biobase, plyr, ggplot2, scales, foreach, xtable, biomaRt, gtools, GOstats, cluster, marray, mclust, RColorBrewer, colorspace, igraph, Rgraphviz, graph, annotate, Hmisc, fastICA, JADE
Imports AnnotationDbi, lumi, fpc, lumiHumanAll.db
LinkingTo
Suggests biomaRt, GOstats, cluster, hgu133a.db, mclust, igraph, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerVDX
SystemRequirements
Enhances doMC
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source MineICA_1.8.0.tar.gz
Windows Binary MineICA_1.8.0.zip
Mac OS X 10.6 (Snow Leopard) MineICA_1.8.0.tgz
Mac OS X 10.9 (Mavericks) MineICA_1.8.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/MineICA/tree/release-3.1
Package Short Url http://bioconductor.org/packages/MineICA/
Package Downloads Report Download Stats

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