May be dumb question
for a given fungi there is assembly with 99contig and gtf file available, we have sequenced sensitive strain and did denovo assembly. For further work I need to generate gtf file for denovo assembly (sensitive strain for which we need to map gene location).
I am not sure how to do it, do I need to do abinitio gene prediction? or is there any way I can use the existing gtf file and modify it?
I am new to this filed, I am sorry if i am asking something which does not make sense.
Oh ya, sensitive reads show 98.8% alignment rate to existing assembly.
Thanks in advance Bhagya C T