newbie question about gff
"Rusch, Michael" <[email protected]>
| Newsgroups | gmane.comp.java.bio.general |
|---|---|
| Message-ID | <A475AF196964604CAEE109F1CA0275AB157D014772@SJMEMXMBS10.stjude.sjcrh.local> |
Newbie question: I want to read in a GFF file and process it taking full advantage of the gene model (e.g. exons belong to a transcript). I see that I can read the GFF into an EntrySet, and then annotate a Sequence with the EntrySet, but I don't have a sequence to start off with. I could read in sequence from a FASTA file, but since I'm not actually using sequence, and I'm dealing with human chromosomes, it seems quite wasteful to do so. I could also just use the EntrySet, but then I can't take advantage of the gene model. Is there a way to get a Sequence object with no sequence, just features from a GFF file? Thanks, Michael ________________________________ Email Disclaimer: www.stjude.org/emaildisclaimer _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l