I have a list of cell markers differentially expressed between 2 groups of cells, that I got with the FindMarkers command in Seurat. I want to enrich for those genes that are expressed in the cell membrane. Are there any specific tools/commands I can use to do that? Thanks!
You can do functional enrichment analysis, for instance with
gProfiler in R and see if your marker genes are enriched in any GO term related with the plasma membrane.
Alternatively, you can generate a list with genes whose product are located at the plasma membrane and perform Gene Set Enrichment Analysis, for instance with
fgsea in R.