Network analysis with R

Question

[remmoya]

Hello,

I am using igraph package for network analysis, I downloaded microrarray data from GEO, now I confuse when will I separate my data for comparing normal and disease. Can anybody tell me the procedure can workflow

[samuelmiver]

I suppose you have two conditions and you want to study if there are differences between their networks, right? Regretfully I do not understand the connection between microarray analysis (usually used to study expression) and networks (used to study protein-protein interactions). Can you give us a more information about what are you trying to analyse, your idea to test and the context of the data?