Score cell cycle and other gene sets with scanpy

[pcm32]

In scRNA-Seq data analysis you often want to score the genes related to the different cell cycle phases to determine on which phase is each cell (you can decide later on whether to regress that our or not). It would be good to have a module that accepts independent smalls sets of genes together with some description and does this (could be used for cell cycle but potentially for other things as well).

Either this could be used: https://scanpy.readthedocs.io/en/stable/generated/scanpy.tl.score_genes_cell_cycle.html or the more generic https://scanpy.readthedocs.io/en/stable/generated/scanpy.tl.score_genes.html#scanpy.tl.score_genes