I'd like to try and use anRichment for WGCNA annotation. Unfortunately the site to download the install files seems to be down. Does anyone have the installation files?
source("https://horvath.genetics.ucla.edu/html/CoexpressionNetwork/GeneAnnotation/installAnRichment.R"); installAnRichment();
Also having issues even installing anRichment. Running on an M2 mac and wondering if that is an issue. I hope the developers come up with a solution soon for putting their full tutorials and resources on CRAN/Bioc/github.
In the meantime, this paper may have a solution for perfomring enrichment on modules: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-021-04554-1
Since the GO package included with WGCNA (anRichment [22]) does not provide support for many genomes (including plant genomes), we have added the package topGO [15] to perform this analysis. Using topGO, we tested overrepresentation of GO terms using a Kolmogorov–Smirnov test for GO enrichment of DEG genes.
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version 2.3.6
WGCNA documentation hosted at UCLA is down for some days, multiple people have made posts on this. That's the danger when developers host code and documentation at sources that are not official repositories such as CRAN or GitHub. Nothing you can do about it other than trying to reach the developer via email.