[Bioc-devel] New packages: PathNet and PathNetData

Jason Smith [Contractor] jsmith at bhsai.org
Tue Feb 5 14:39:09 CET 2013

The PathNet package and its associated experimental data package
PathNetData are now available in the BioC development branch.

PathNet uses topological information present in pathways and
differential expression levels of genes (obtained from microarray
experiment) to identify pathways that are 1) significantly enriched
and 2) associated with each other in the context of differential
expression. The algorithm is described in: PathNet: A tool for pathway
analysis using topological information. Dutta B, Wallqvist A, and
Reifman J. Source Code for Biology and Medicine 2012 Sep 24;7(1):10.

BioC page for PathNet:
BioC page for PathNetData:

Jason Smith
Software Developer, HJF
Biotechnology HPC Software Applications Institute

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