COMBINE-lab / salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
https://combine-lab.github.io/salmon
GNU General Public License v3.0
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LIBTYPE question #848

Open EsperanzaDai opened 1 year ago

EsperanzaDai commented 1 year ago

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!