Entering edit mode
3.5 years ago
Tota
▴
20
I have cell lines where RNA was extracted and was split across two lanes giving me two technical replicates per sample. I have my read counts for each technical replicate and I am going to use edgeR to get a DEG list. Is there a program which will average the reads from the technical replicates? Thank you.
Yes same biological sample, wouldn't averaging be more appropriate? Concatenating the two technical seems to be a lot easier.
You don't have to do anything manually, if you tell
edgeR
which samples represent the same underlying biological sample in the design matrix, you should be set.Thank you. I will try that!
on top of what Friederike said, no, no need for averaging. That sample could just have well be run in a single lane, summing both will be enough (especially when each lane only contributes 1/2 of the amount of sequence you ordered)
That makes sense, thank you. I will sum the reads in that case.