Hi everyone, I have a question regarding the

samplesheet.csv

format for nf-core/rnasplice. The documentation indicates that “strandedness” is a required column, and the example header is:

sample,fastq_1,fastq_2,strandedness,condition

I have paired-end RNA-seq data for a single sample, where R1 is the forward read and R2 is the reverse read. Should I include one row for this sample (with both

fastq_1

and

fastq_2

specified), or should I provide two separate rows — one for each read file? Thank you very much.

Hi @Qing (Leah) Li you can ask pipeline related questions to their dedicated channel, #C0493FQQZ3P in this case

Thank you very much, I will. 👍

the strandedness is related to the orientation of the fragment/insert not the reads themselves. generally RNA-seq (standard RNA-seq Illumina kit) results in the reverse complement molecules OR what would be put in the tool as reverse reads if you want to check to be sure do a quick test with salmon: https://www.biostars.org/p/98756/#98758