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

SPIA

Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations

Bioconductor version: 2.13

This package implements the Signaling Pathway Impact Analysis (SPIA) which uses the information form a list of differentially expressed genes and their log fold changes together with signaling pathways topology, in order to identify the pathways most relevant to the condition under the study.

Author: Adi Laurentiu Tarca <atarca at med.wayne.edu>, Purvesh Kathri <purvesh at cs.wayne.edu> and Sorin Draghici <sorin at wayne.edu>

Maintainer: Adi Laurentiu Tarca <atarca at med.wayne.edu>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("SPIA")

 

PDF	R Script	SPIA
PDF		Reference Manual

Details

biocViews	GraphsAndNetworks, Microarray, Software
Version	2.14.0
In Bioconductor since	BioC 2.4 (R-2.9)
License	GPL (>= 2)
Depends	R (>= 2.14.0), graphics, KEGGgraph
Imports	graphics
Suggests	graph, Rgraphviz, hgu133plus2.db
System Requirements
URL	http://bioinformatics.oxfordjournals.org/cgi/reprint/btn577v1
Depends On Me
Imports Me
Suggests Me	graphite, KEGGgraph

Package Archives

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

Package Source	SPIA_2.14.0.tar.gz
Windows Binary	SPIA_2.14.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	SPIA_2.14.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats