User: dvillarlozano

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Posts by dvillarlozano

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Answer: A: Wgcna with missing values - error with calculation of bicor correlations in pick
... Hi again :) I tried the option you suggested, but unfortunately I am still getting the same error. I also tried filtering my expression matrix more aggressively for genes with higher mean expression across species (from 10,689 genes to 9,991 genes with the more aggressive filtering): this leads to ...
written 3.6 years ago by dvillarlozano10
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Comment: C: Wgcna with missing values - error with calculation of bicor correlations in pick
... Thanks a lot, Peter. I have specified the correlation options as suggested and this indeed fixes the problem with pickSoftThreshold. Unfortunately I still get the same error with blockwiseModules: TOM: exit because 'adjacency' reported an error. Error: Standard deviation of some genes is zero. ...
written 3.6 years ago by dvillarlozano10
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Wgcna with missing values - error with calculation of bicor correlations in pickSoftThreshold and blockwiseModules
... Hi All, I am running wgcna to identify modules of correlated genes, using RNA-Seq data from orthologous genes across species. My data matrix n consists of gene expression counts for 1-1 orthologous genes (columns) and samples (rows), where missing values are present for genes that are not found as ...
rnaseq wgcna software error missing data written 4.0 years ago by dvillarlozano10

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