[Bioperl-l] parsing entrezgene file (lost data)
carandraug+dev at gmail.com
Mon Jul 4 02:38:36 UTC 2011
I've been trying to get some data from an ASN.1 entrezgene file.
However, I can't seem to access some of the data on the file. I've
read the Feature-annotations page on the wiki (even fixed a bug in
there) but still nothing. So I used Data::Dumper to look at the Seq
and Annotation objects and couldn't see it in there at all although
it's on the original file (attached).
The data I want from the sequence are the ids "NM_002105" and
"NP_002096" which show up several times on the file. However, when I
my $file = $ARGV;
my $seqio_object = Bio::SeqIO->new(-file => $file, -format => 'entrezgene');
my $seq_object = $seqio_object->next_seq;
I can't find 002105 or 002096 anywhere on the output.
Am I doing something wrong? How can I solve this?
Thanks in advance,
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