I am a master student with biology background. I recently inherit a RNA Seq analysis project from a PhD student in my lab. We already have paired-ended RNA Seq data generated from illumina HiSeq and mapped that sequence using de novo assembly. Now i get contigs but i am now get stuck(i don`t have any reference genome for aligning), now i dont know what to do next.
My aim is to find the novel genes in rna seq data. PLEASE HELP
Thanks in advance :)