Hi, I am wondering if anyone has a subroutine or function (hopefully in Perl or pseudocode) to detect whether a fastq file is a shuffled paired-end or not. I think I've seen a few different syntaxes on headers and so I feel like it requires a little more knowledge on their formats than what I have right now.
Yes, I am still looking into it, but I am wondering if this has already been done, to save me time...