I have fastq files for 10 samples. For each sample, I have 2 fastq files (paired end) and average size of compressed fastq file is 4gb and uncompressed is 16gb. It means, I have 20 uncompressed fastq files of size 320gb. Now I want to do mapping using BWA. I have 10 folders containing 2 files each.
I want to know if it is possible to input compressed fastq files in BWA?
What method would you use to map all these files? (fast and easy)
Should I just split each file and then map it?