Hi,
I am using the featureCounts from the Rsubread package. And I am trying to understand what does the requireBothEndsMapped option do. The manual says
"logical indicating if both ends from the same fragment are required to be successfully aligned before the fragment can be assigned to a feature or meta-feature. This parameter is only appliable when isPairedEnd is TRUE."
My data is paired end and i am counting miRNA,, so i provided miRNA as gtf and my bam file as my input.
Is this requireBothEndsMapped applicable in my case? Can you explain me in a simple way?