To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("MineICA")

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

MineICA

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see MineICA.

Analysis of an ICA decomposition obtained on genomics data

Bioconductor version: 3.0

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:

## try http:// if https:// URLs are not supported
source("https://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	1.6.0
In Bioconductor since	BioC 2.12 (R-3.0) (3 years)
License	GPL-2
Depends	R (>= 2.10), Biobase, plyr, ggplot2, scales, foreach, xtable, biomaRt, gtools, GOstats, cluster, marray, mclust, RColorBrewer, colorspace, igraph, Rgraphviz, graph, annotate, Hmisc, fastICA, JADE, methods
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_1.6.0.tar.gz
Windows Binary	MineICA_1.6.0.zip
Mac OS X 10.6 (Snow Leopard)	MineICA_1.6.0.tgz
Mac OS X 10.9 (Mavericks)	MineICA_1.6.0.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/MineICA/tree/release-3.0
Package Short Url	http://bioconductor.org/packages/MineICA/
Package Downloads Report	Download Stats

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