Hello,

I want to align my reads from smallRNAseq on my reference genome but I don't know which aligner I need to use ?

I tried with STAR with --outFilterMismatchNoverLmax 0.05 --outFilterMatchNmin 16 --outFilterScoreMinOverLread 0 --outFilterMatchNminOverLread 0 --alignIntronMax 1

What aligner are you using and with which parameters ? Thank you