@egonw a few days ago, I bumped the #Bioconda package of r-wikipathways to v1.30 . Thank you for this wonderful package!
Today, after quite some tinkering, I managed to overlay differential expression results. This is not stable code, yet. The enrichment is a bit fiddly and the overlay relies on finding the right offsets in a downloaded path figure. But perhaps, I am naive and there is a better way?
@rupdecat @egonw please create a PR for this page to link to your package: https://www.wikipathways.org/download.html
I don't think so: Only now, I discovered the vignettes and actually read them. My overlay approach is neither visually appealing nor graphically stable. 🤦♂️ I will hardly find the time next week, but will start experimenting with RCy3 asap. That ought to solve my little issue.
Once integrated, I will demonstrate a workflow integration (and link that in a PR, promised). Note, this will take some time, given the time of the year and some teaching obligations I have in addition.
@rupdecat what's the link to that package?
