[Bioperl-l] GenBank Feature: variation
Nicolaus Hepler
nlhepler at umd.edu
Wed Jun 7 13:46:32 UTC 2006
Hello,
I am having some difficulty here. I have a list of accessions, which
are the parameters for a get_Stream_by_acc() function on a
Bio::DB::GenBank object. None of the returned GenBank information
for any of my accessions seems to contain variation data, no matter
how I try to coax it out with unflattener and typemapper. This data
is, however, available via the web interface of NCBI Nucleotide, as
an optional feature (SNP). I was wondering if there was some option
I'm missing in the initialization of the Bio::DB::GenBank object (no
options currently) that will coax the database into giving me this
data? Or something else that I'm missing altogether. The organism
of interest is human, taxon:9606.
Nicolaus Lance Hepler
nlhepler at mail dot umd dot edu
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