[BioC] WGCNA: labeledHeatmap and verboseScatterplot correlations and p-values are not the same

Sindre Lee sindre.lee at medisin.uio.no
Sat Aug 9 01:40:42 CEST 2014


I have used the WGCNA package and found 2 modules which are of interest 
for me. I picked out from the labeledHeatmap (which related the module 
eigengene with clinical traits). I then selected the modules (one at a 
time) and ran the verboseScatterplot function.

For one module its correlation was 0.51, p = 0.01 in labeledHeatmap, 
but 0.27, p<0.0001 in the verboseScatterplot.
How can this be?

Thank you.

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