I have a list of conserved cell type markers discovered from Seurat. I would like to annotate clusters with cell types based on that.
For example, here is a profile of cell type markers (from mouse genome) I am dealing with
Gm42418
Nme2
Rpl19
Malat1
AY036118
mt-Co3
mt-Nd2
Ahnak
Hnrnpu
mt-Atp6
mt-Atp8
mt-Nd5
Ly6g
Hist1h4d
Nedd4
mt-Nd1
Lars2
Xist
Prrc2c
Myof
mt-Nd4l
mt-Nd6
mt-Nd3
mt-Co1
Prpf4b
Hist1h1e
mt-Cytb
mt-Co2
mt-Nd4
Hist1h1b
Gm26917
how can I computationally predict the cell type if the genome is mouse mm10?
Thank you so much for your insight. It made me go back to my code and realize that I have not limited the presence of mitochondrial contaminated cells.
I am happy to hear that !