COMBINE-lab/salmon

LIBTYPE question

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EsperanzaDai commented

Hi,

Could I ask if SR is flagged instead of ISR for paired fastq files, what will happen?
Detail: -1 and -2 are specified instead of -r.
I wonder if, in terms of the programs, the "I" will be the default parameter attached before the "SR" if -1 and -2 were given?

Thank you!