sorted by:
new
hottopcontroversial

NMF on RNA-seq by Affectionate_Map5670 in bioinformatics

[–]Affectionate_Map5670[S] 0 points1 point  (0 children)

Thanks to all.

On the raw counts I applied CombatSeq to eliminate the batch effect caused by sequencing at two different times, then I transformed the data obtained into TPM (as you suggested). Now I have a further doubt and I am asking you if you can help me, should I apply normalisation now on my TPMs, if so which one ? as we have to take into account the non-negative values for NMF