Hello everyone! I am going to analyze data coming from the Illumina HiSeq 3000 system. The datatype of my raw data is .fastq and Galaxy has correctly recognized them.
As I need to run Trimmomatic on Galaxy I noticed that the datatype must be .fastqsanger, therefore I should change to this kind of format in order to perform the analysis. Fastq Groomer seems to be suitable for that but looking on some posts/documents maybe could be an unnecessary step because if I understood well the latest Illumina encoding is already "sanger".
My questions are:
- Is the extension of these files just a question of formality? In this case I would just change "manually" the datatype from fastq to fastqsanger.
- Or using Fastq Groomer is still a necessary step to switch between them?
Thank you in advance!