CYTOHUBA QUESTION (cluepedia)

Question

[hwangseok1025]

GOOD MORNING! Is someone here familiar with Cytoscape and the apps Cluego or Cluepedia??? I'm in truble how to select genes from Cluepedia... I think number of my genes are toooooooooooooooooooooooooo large...:/ It's abt 1200 genes (Too many nodes and edges were appeared) [Turquosie module MM > 0.9] My clupedia result are too ugly

Anyway, do you know how to fix this?...:)

Answer 1

[churas.camera]

Assuming you are doing a functional analysis, to reduce the number of nodes you could increase the min #/% of genes and to decrease the edges you could increase the edge threshold Kappa Score. Both of these are found under the Advanced Term/Pathway Selection Options