[Biojava-l] Parsing an EMBL flatfile

[Anna Henricson]

Hi,
I'm a new beginner at Biojava and I'm trying to parse an EMBL flatfile, it's
especially info in the CDS section of the Feature Table that I want to
retrieve. I have looked at the examples and tutorials on the Biojava website
and tried using the FeatureFilter.ByType("CDS"), however, that only gives me
the exons to join and not the info that follow, such as protein_id, db_xref,
the amino acid sequence etc.
Instead, I have been trying to use the EmblLikeFormat class, EmblProcessor,
FeatureTableParser and EmblLikeLocationParser, but I can't really put it
together.
I would really appreciate some help, since I'm the only one around here that
is using Biojava.
Thanks!
/Anna

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Anna Henricson, MSc, PhD student
Center for Genomics and Bioinformatics (CGB)
Karolinska Institutet
S-171 77 Stockholm
Sweden
Phone: +46 (0)8 524 87296
Fax: +46 (0)8 337983