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Question: Using Jactivemodules Cytoscape Plugin For Proteomics Data
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gravatar for Woa
8.9 years ago by
Woa • 2.8k
United States
Woa • 2.8k wrote:

Does anyone use the 'jActivemodules' cytoscape plugin for finding out subgraphs in a protein-protein interaction network? In that case how do you provide the 'p-value' for expression which is required as input? Will 'log fold change' value converted to a p-value assuming normal distribution work?

Are there some good alternative software available?

Thanks

proteomics cytoscape • 2.6k views
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written 8.9 years ago by Woa • 2.8k
0
gravatar for Sudeep
8.8 years ago by
Sudeep • 1.6k
.
Sudeep • 1.6k wrote:

Have you figured this out ? if not, you have to give p value along with log fold change in the expression matrix. like, 

ID\tExp1\tExp2\tExp1\tExp2
id1\tlog.Exp1\tlog.Exp2\tpval.Exp1\tpval.Exp2

download & look into the sample data provided here. hope this helps.
ADD COMMENT • link written 8.8 years ago by Sudeep • 1.6k
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