Pathway activity in Bulk-RNA-SEQ analysis

Question

[PBC]

Hi There!

I would like to perform a pathway activity using something like AuCell for single-cell. I have bulk-RNA seq, and I am aware of differences between the two types of data. I would like any suggestion of software or analysis that I can perform where I can create a set of genes (example: ribosome) and provide a normalized expression matrix. The goal is to know how much ribosome signature is change based on this set of genes.

I also was looking decoupleR, but I do not have weight of network interactions. And I am also using non-human data (zebrafish).

Does someone has any suggestions?

Thank you!

[jared.andrews07]

It seems like ssGSEA/phage/GSVA may be what you are looking for.