I have some
scRNAseq data from only
CD4 T cell and clustered them using existing algorithms. Now I am trying to label these clusters to see which subsets of CD4 T cells I have in my data. First I decided to use label transfer method but there should be a reference for that and I did not find it. Therefore I decided to do it manually and look at the top 20 genes of each cluster but except for one cluster in which I found only one gene as marker of one of the
CD4 T cell subsets, for the rest I did not see any major gene. Do you have any experience how to label the clusters from such
scRNAseq data or do you know any reference file for such question?