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.
|Author||Junwei Han,Yanjun Xu,Haixiu Yang,Chunquan Li and Xia Li|
|Date of publication||2013-11-01 08:31:57|
|Maintainer||Junwei Han <firstname.lastname@example.org>|
|License||GPL (>= 2)|
CalGIF: Calculate the global influence factor (GIF)
ExampleData: The variables in the environment variable ExampleData of the...
getclass.labels: Get the labels of example dataset
getdataset: Get the example dataset
PAGIData: The variables in the environment variable PAGIData of the...
PAGI-internal: PAGI internal functions
PAGI.Main: A novel pathway identification approach based on global...