Hello!
I am using featuresCount for read summarization, with the following command:
featureCounts -T 5 -t exon -g gene_name -a genomehg38.gtf -o counts.txt file.sam
I am wondering if I had to sort by name my sam file before to use featureCounts. I have read the featuresCount's documentation but I didn't understand it.
Thank you in advance
Best
It would be helpful for you to understand how featurecounts works if you tried both the options. Try it with and without sorted sam and let us know if it makes any difference.
From here ,
Thank you! I have tried now and the results were the same :) Thank you again!
Thanks @noeD