Hello everyone
I have different SRR files in SRA format, how can i covert them into fastq format with cmd? Fastq-dump work on a single SRR file, but my aim is convert every SRR from a certain SRP. I'm able to download the entire SRP with related SRR with pysradb.
Any suggest? Thanks
You can use a loop to go through every file you need to convert or use a more advanced application like
gnu parallel
to do something more elaborate. If you are working on a cluster you can submit multiple parallel jobs withfastq-dump
at the same time.