Module membership vs gene significance result and Modules-trait relationships reuslt have a different trend
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@brucewong19990-21113
Last seen 3.0 years ago

Hi,

I used WGCNA to generate the Modules-trait relationships , and I choose two modules with the reddest color which is pink(0.49, 6e-27) and green(0.33, 5e-12). But when I move on to generate the Module membership vs. gene significance plot, I found out that in Module membership vs. gene significance plot, the pink only has p = 2.3e-44, cor = 0.6, while the green one has p=1.3e-117, cor=0.77.

Could someone tell me if it is a normal result ?

And I would like to konw if there are any criteria to decide the number of the modules? In other words, if I have about 23000 genes, how should the arguments in blockwiseModules be set, like the minModuleSize for example?

Thank you!

WGCNA • 368 views
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hi,

did you solve the problem? I have the same problem, can you suggest at which point we made the mistake

thank you

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similar problem here, my detailed question is here: Calculation of module membership in WGCNA

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