I was downloading some pair end data files from ebi.ac.uk. I have the following problem in general they have just two files per sample (for pair end). This RNAseq has 4 files per sample I think they split the files in 4, two for each files.
But not sure which are the files that I have to merge :
Example: These two code belong to the same sample, however each code has two files. Paired - SRR5314617 File 1 File 2
- SRR5314618 File 1 File 2
Then my question is? I have to merge file1 with file1 and 2 with 2? or 1 and 2 in code 1 same code2? Not sure exactly how Ebi organize it.