Hello, I'm currently using BioJava to upgrade a eukaryotic gene finder program (EVIGAN) to be compatible with the GFF3 formats. Your BioJava genome package is very useful, but I had a question about implementing a sort of gene hierarchy from parsed files. Essentially, I would like to be able to read in a GFF3 file of a region of interest, parse out the CDS segments, and then create a hierarchy of genes from the attribute tags, which I can then employ later in my program. It seems as if the org.biojava3.genome.parsers.gff class is good for this, but there doesn't seem to be a data structure for organizing related "Feature" objects into a higher grouping based on similar attributes. Does anyone know of a way to implement this, or a package within BioJava which could be useful?
Thanks a lot, Daniel _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
