To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("DeSousa2013")

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

DeSousa2013

Poor prognosis colon cancer is defined by a molecularly distinct subtype and precursor lesion

Bioconductor version: Release (3.0)

This package reproduces the main pipeline to analyze the AMC-AJCCII-90 microarray data set in De Sousa et al. accepted by Nature Medicine in 2013.

Author: Xin Wang <Xin.Wang at cruk.cam.ac.uk>

Maintainer: Xin Wang <Xin.Wang at cruk.cam.ac.uk>

Citation (from within R, enter citation("DeSousa2013")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("DeSousa2013")

Documentation

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

browseVignettes("DeSousa2013")

 

PDF R Script Main vignette:Poor prognosis colon cancer is defined by a molecular distinct subtype and develops from serrated precursor lesions
PDF   Reference Manual

Details

biocViews Bioinformatics, ExperimentData
Version 1.1.1
License Artistic-2.0
Depends R (>= 2.15)
Imports affy, frma, frmaTools, hgu133plus2.db, hgu133plus2frmavecs, sva, rgl, ConsensusClusterPlus, cluster, siggenes, ROCR, pamr, survival, gplots, AnnotationDbi, Biobase
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System Requirements
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Package Archives

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

Package Source DeSousa2013_1.1.1.tar.gz
Windows Binary DeSousa2013_1.1.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) DeSousa2013_1.1.0.tgz
Mac OS X 10.9 (Mavericks) DeSousa2013_1.1.0.tgz
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