Try it out here!
immunogenomics.io/starcat/

Your data stays in the browser and doesn't get uploaded anywhere! For larger datsaets, you can run it from python or the command line. Let me know if you have a gene program catalog you'd like to add.

github.com/immunogenomi...

We also made a website and python API to run starCAT with several other published gene program catalogs including a myeloid reference from @tymillerlab.bsky.social et al and a hematapoetic stem cell reference from @bloodandtime.bsky.social and Hojun Li

Some highlights from the revision:

We applied starCAT to several cancer datasets and found that having more proliferating and activated CD4 and CD8 T cells in a tumor predicts immune checkpoint inhibitor resistance. starCAT made this very easy to test!

Paper from me, Michelle Curtis, @soumya-boston.bsky.social and co out now in @natmethods.nature.com! We now call it starCAT instead of *CAT but the strategy is the same: Build a catalog of ~50 interpretable T cell gene expression programs + use them to interpret new data nature.com/articles/s41...