Greetings, I have a question about coordinate-only data. I have a database with many flavors of annotation, and I build collections of objects from this data (usually Sequences). However I have an instance where I need to retrieve coordinate based data only. For instance, I'd fetch something like all 3' UTRs defined in my RefSeq table, and then build a .bed file to be loaded into UCSC's genome browser. In this case, I need the coordinates only (chromosome, txStart, txEnd) and I do not need the actual sequence.
So basically I'd like to make a collection of Features. But since in the tutorial is says: "Features cannot be created independently of a sequence", how would I do this? I expect I could create a Sequence object with an empty or null String/SymbolList, and then add a single Feature to each... but this does not seem like it would be the intended solution. Is there some other method by which I could/should accomplish this? Thanks very much Chris _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
