I have N=44 WGBS samples from purified cell types from whole blood samples. I'm interested in identifying DMRs for six purified cell types (DMR in Bcell vs else, CD4T vs else, etc), but I have unequal sample sizes in each group:
> table(pheno_table$cell_type) Bcell CD4T CD8T Gran Mono NK 4 12 4 14 6 4
My two questions are:
(1) Will the unequal sample sizes be a problem for
(2) My understanding based on reading the
dmrseq vignette is that I can give
testCovariate a multi-level factor variable with 6 levels. Is it possible to give any other design matrix?
Thank you! Stephanie