Hi all, I was reading through the dev documentation (soon to be 2.0) and came across this line:

This gives full control over the contrast definition but requires understanding of the model matrix. Some downstream applications (e.g. GSEA_GSEA, SHINYNGS_APP) do not support formula-based contrasts as they require a meta.variable.

I'm just wanting to confirm this will also be the case for 2.0? And that we may have to custom post-hoc GSEA for formula based designs (or design our own modules? 🙂) Thanks in advance!

Hi! So far this feature is not planned for next release and we are not currently tracking it. Feel free to create an issue in the repository or ping us for review if you submit a PR with your patch to the GSEA module. Thank you!