Hi,
I have two paired-end fastq compressed files coming from HiSeq RNA-SEq experiment, ie., pair.1.fastq.gz and pair.2.fastq.gz.
The files are very large so I wanted to just take a few million/thousand reads from each of them (by their respective pairs) and use that file for trying/debuuging purposes.
The results should be two paired-end files, i.e., pair.test.1.fastq.gz and pair.test.2.fastq.gz.
I'd be happy to hear some suggestions on how to do this or hear about tools available, thanks!