topologyGSA: Gene Set Analysis Exploiting Pathway Topology

Using Gaussian graphical models we propose a novel approach to perform pathway analysis using gene expression. Given the structure of a graph (a pathway) we introduce two statistical tests to compare the mean and the concentration matrices between two groups. Specifically, these tests can be performed on the graph and on its connected components (cliques).

Version: 1.4.3
Imports: graph, gRbase (≥ 1.7), qpgraph, fields
Suggests: Rgraphviz
Published: 2014-03-26
Author: Sofia Massa, Gabriele Sales
Maintainer: Gabriele Sales <gabriele.sales at unipd.it>
License: AGPL-3
NeedsCompilation: no
CRAN checks: topologyGSA results

Downloads:

Reference manual: topologyGSA.pdf
Package source: topologyGSA_1.4.3.tar.gz
Windows binaries: r-devel: topologyGSA_1.4.3.zip, r-release: topologyGSA_1.4.3.zip, r-oldrel: topologyGSA_1.4.3.zip
OS X Snow Leopard binaries: r-release: topologyGSA_1.4.3.tgz, r-oldrel: topologyGSA_1.4.3.tgz
OS X Mavericks binaries: r-release: not available
Old sources: topologyGSA archive