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Ah, yes this makes sense! I knew this was an issue with, say, using kraken2 on shotgun metagenomic reads, but I don't have a lot of experi…
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Thank you. Maybe it's best to confirm with the authors about how they're getting responder/non-responder labels. I'll do that now.
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If you sequenced a short hypervariable region, most of your sequence reads will not be able to be assigned to the species level. One possi…
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Consider emailing Dr. Horvath about this. Until enough people make him aware of this issue WGCNA "problem" is unlikely to get fixed.
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Unfortunately, there are only tutorials and codes for tutorials for WGCNA, not installation files for any their packages... :(
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See this link for the WGCNA documentation and code from Peter Langfelder : https://bioinformatics.stackexchange.com/questions/21885/where-t…
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It's a commercial product, a *Staphylococcus hominis* genome. This species is not found in the DADA2 results, so I guess DADA2 is not ident…
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Plots are incomplete without legends. Please share the complete plot with mappings for shape and color.
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Thank you for your reply andres.firrincieli. I have attached the PCA plot of the expression data used in the WGCNA.
version 2.3.6
version 2.3.6