Hi I am using the GEUVADIS dataset, in the readme of the project I found this paragraph talking about normalization:
Normalization: None: raw read counts
Library depth: Read counts scaled by total number of mapped reads (mRNA), or total number reads mapping to miRNAs (miRNA) per sample, then adjusted to the median of the sample set (45M for mRNA, 1.2M for miRNA)
Library depth and transcript length: RPKM
Library depth & expressed & PEER: Library depth scaling as above, removal of units with 0 counts in >50% samples, and removal of technical variation by PEER normalization
I can't understand the way they normalized data. can anybody help me, please?