Hi.
Question about testing data
I'm trying to write a module RMATS, processing RNAseq BAM files.
This module has options for
• single end vs paired-end reads
• forward vs reverse vs unstranded/auto
• additional options that don't depend on the library read type
My understanding is that I should check that all options work when writing tests. I don't need to test all combinations. So I need to check read type twice (paired vs single), and read direction three times (forward, reverse, unstranded). I don't need to do all 6 combinations. Is that correct?
I was looking at the human Illumina bams, and it seems like there is only paired-end RNA https://github.com/nf-core/test-datasets/blob/modules/data/genomics/homo_sapiens/illumina/bam/test.rna.paired_end.bam - have I got that right? Is there any single-end RNA I've missed?
Is the GTF file to use with this RNA https://github.com/nf-core/test-datasets/blob/modules/data/genomics/homo_sapiens/genome/genome.gtf?
Thank you
Uri David
Uri David Akavia
03/08/2026, 4:09 PM
If this is listed somewhere, you can just send me the link, but I couldn't find it in the readme in the homo_sapiens directory. Sorry!