Dear all,
I have to find the best way to measure the differential expression in samples subjected to RNA sequencing.
I briefly summary the experiment in order to help you in understanding the question:
I have the RNAseq data of 6 developmental stages, there are no biological replicates but each library consists of a pool of several animals. (I know that it would be better to have replicates, but that's the way!)
I'd like to find differential expressed genes between two stages.
I know that, without replicates, I can only use NOIseq and DEseq. And which normalization method should I adopt?
Which software should be better?
Anyone has a similar experimental plan?
Suggestions are well accepted.
Many thanks in advance to everyone will help me!
Marianna
I have to find the best way to measure the differential expression in samples subjected to RNA sequencing.
I briefly summary the experiment in order to help you in understanding the question:
I have the RNAseq data of 6 developmental stages, there are no biological replicates but each library consists of a pool of several animals. (I know that it would be better to have replicates, but that's the way!)
I'd like to find differential expressed genes between two stages.
I know that, without replicates, I can only use NOIseq and DEseq. And which normalization method should I adopt?
Which software should be better?
Anyone has a similar experimental plan?
Suggestions are well accepted.
Many thanks in advance to everyone will help me!
Marianna
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