How to create a GRangesList object for genome not from UCSC?

[dicty]

Hi,

I just downloaded a virus genome and the annotation file from NCBI, but not UCSC. How to create a GRangesList object with the virus genome sequence and annotation file that are not from UCSC?

Thanks,

Dicty

[robsyme]

If you are able to get the gene starts, stops, chromosome, etc into vectors this gist might be helpful:

https://gist.github.com/660729

[dicty]

Thanks a lot.

Actually I'd like to make a TranscriptDb object, but not sure how to do it.