PAGI: The package can identify the dysregulated KEGG pathways based on global influence from the internal effect of pathways and crosstalk between pathways

The package can identify the dysregulated KEGG pathways based on global influence from the internal effect of pathways and crosstalk between pathways. (1) The PAGI package can prioritize the pathways associated with two biological states by statistical significance or FDR. (2) The PAGI package can evaluated the global influence factor (GIF) score in the global gene-gene network constructed based on the relationships of genes extracted from each pathway in KEGG database and the overlapped genes between pathways.

Version: 1.0
Depends: R (≥ 2.15.1), igraph
Suggests: Matrix
Published: 2013-11-01
Author: Junwei Han,Yanjun Xu,Haixiu Yang,Chunquan Li and Xia Li
Maintainer: Junwei Han <hanjunwei1981 at 163.com>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
CRAN checks: PAGI results

Downloads:

Reference manual: PAGI.pdf
Vignettes: PAGI Overview
Package source: PAGI_1.0.tar.gz
OS X binary: PAGI_1.0.tgz
Windows binary: PAGI_1.0.zip