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4.4 years ago
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This is my first time to using R to run analysis, i just follow the tutorial R code and try to learning WGCNA . However, there is a problem that I cannot solve, and the relevant solutions cannot be found online,I am very anxious, I have not been able to solve this problem for several days. PLEASE HELP ME! THANK U VERY MUCH! the problem is when i try to run WGCNA "TOM plot", the error as follow, but i don't know why! if you are familiar with R and WGCNA！help me please. I really need your help and thanks you very very much.
if you need more detail about my data！please leave your email, i can send you everything about this analysis!
oad(net$TOMFiles[1], verbose=T) Loading objects: TOM TOM <- as.matrix(TOM) TOM[1:4,1:4] 1 2 3 4 1 0.000000000 0.17213194 0.008410333 0.138254829 2 0.172131935 0.00000000 0.012847520 0.071286006 3 0.008410333 0.01284752 0.000000000 0.006169962 4 0.138254829 0.07128601 0.006169962 0.000000000 dissTOM = 1-TOM plotTOM = dissTOM^7 diag(plotTOM) = NA moduleColors = labels2colors(moduleLabels) TOMplot(plotTOM, net$dendrograms, moduleColors, + main = "Network heatmap plot, all genes") Error in TOMplot(plotTOM, net$dendrograms, moduleColors, main = "Network heatmap plot, all genes") : ERROR: number of color labels does not equal number of nodes in dissim. nNodes != dim(dissim)[[1]] nSelect = 400 set.seed(10) select = sample(nGenes, size = nSelect) selectTOM = dissTOM[select, select] Error in dissTOM[select, select] : subscript out of bounds
