Hi there,
I really appreciate the work of DESeq and EdgeR for taking the overdispersion into account for biological replicates. However assuming when analyzing tumor samples in a few cancer subgroups, do samples in the same subgroup count as "biological replicates" too? Particularly does the overdispersion model in DESeq statistically sound for a potential more variable samples within a subgroup?
I really appreciate the work of DESeq and EdgeR for taking the overdispersion into account for biological replicates. However assuming when analyzing tumor samples in a few cancer subgroups, do samples in the same subgroup count as "biological replicates" too? Particularly does the overdispersion model in DESeq statistically sound for a potential more variable samples within a subgroup?