WGCNA blockwiseModules() output too small modules#4
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pdicarl3 wants to merge 2 commits intocran:masterfrom
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WGCNA blockwiseModules() output too small modules#4pdicarl3 wants to merge 2 commits intocran:masterfrom
pdicarl3 wants to merge 2 commits intocran:masterfrom
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Note that this repository is read-only mirror you should contact the author of the package to get the change added to the package distributed through CRAN |
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hi,guys！ |
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@liuyu988 this is not the place to ask questions. Ask on the multiple forums for that https://biostars.org or https://support.bioconductor.org or https://bioinformatics.stackexchange.com/. (Not on all three sites) |
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I am doing co-expression network with WGCNA on RNA-seq data (70-200 samples).
While using blockwiseModules() function, I obtain modules smaller than the module size cut-off.
Namely, minModuleSize <= 20, I got modules with just 1, 2, 4, genes.
It seems a kind of exception in the function.
How can this be possible?
Further, I can say that this happens more frequently when the soft-thresholding power < 4 (unsigned, signed hybrid networks) or power < 9 (signed networks) even if the soft-threshold criterion is satisfied. The occurrence for larger powers is negligible, still some exceptions remain.