Hi,

I was wondering whether AUCell can be used to test for gene set enrichment in bulk RNA-seq samples: https://github.com/aertslab/AUCell/issues/38

Moreover, what statistical tests would be suitable for comparing AUCell scores between conditions. Since AUCell scores are rank-based, I presume non-parametric tests would be most applicable?

Best wishes,

Lucy

The problem is that with non-parametric tests using these scores you have low power at typical (low) sample size. Why not just using something like fgsea?