Description Usage Arguments Value Author(s)
Constructing protenin-protein interaction network from BioGRID database
1 | PPIFromBioGRID(pvalues, GeneNames, BioGRIDfilename, savename, column1, column2)
|
pvalues |
A N-dimensional vector of gene expression level, processed by limma |
GeneNames |
A N-dimensional vector of gene symbols, pre-filtering by expression profiles |
BioGRIDfilename |
The file downloaded from BioGRID, like BIOGRID-ORGANISM-Homo_sapiens-3.4.138.tab.txt |
savename |
The file to save filtered gene symbols and network edgelist |
column1 |
Source column in BioGRID file, for Saccharomyces_cerevisiae column1=1 and for Homo_sapiens column1=3 |
column2 |
Target column in BioGRID file, for Saccharomyces_cerevisiae column2=2 and for Homo_sapiens column3=4 |
net two or three column edge list for NetSimplify
or
PPIplot
and p-values vector.
Dong Li, dxl466@cs.bham.ac.uk
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