Recently, I tried use hisat2 to mapping RNA-seq, then use cufflinks to measure the gene expression in galaxy. I am curious about the step after hisat2. If I finished hisat2, should I need use to samtools to sort the bam file? Because I did not sort the output of hisat2, and it run well in cufflinks. I am curious about the result, it is right or not, compared with sorted bam in galaxy?