Apologies for the simple question, but I can't seem to find a straight forward answer searching online.
I created interleaved fastq files for each of my libraries, and was going to proceed with trimmomatic.
I had intended to use the the PE flag, but it occurs to me that I would be feed in just one file per sample. Would this trip up trimmomatic? In other words, do paired end files need to be separated, or can trimmomatic detect interleaved files?
Thanks in advance!
I created interleaved fastq files for each of my libraries, and was going to proceed with trimmomatic.
I had intended to use the the PE flag, but it occurs to me that I would be feed in just one file per sample. Would this trip up trimmomatic? In other words, do paired end files need to be separated, or can trimmomatic detect interleaved files?
Thanks in advance!
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