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

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

Analysis of an ICA decomposition obtained on genomics data

Bioconductor version: Development (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:

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 1.5.1
In Bioconductor since BioC 2.12 (R-3.0)
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
Suggests biomaRt, GOstats, cluster, hgu133a.db, mclust, igraph, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerVDX
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source MineICA_1.5.1.tar.gz
Windows Binary MineICA_1.5.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) MineICA_1.5.1.tgz
Mac OS X 10.9 (Mavericks) MineICA_1.5.1.tgz
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