[Bioperl-l] OX lines of EMBL files [patch included]

Jacob Bunk Nielsen bunk at novozymes.com
Tue Dec 21 07:09:32 EST 2010


I have noticed that BioPerl does not write OX lines with NCBI TaxIDs in.
I'd like this feature even though the official way seems to have a a
source feature with a db_xref to a 'taxon:(\d+)' for this sort of thing.

I've found and example of an OX line being used for a TaxID at

Please find attached a patch for reading and writing NCBI TaxIDs to EMBL
files and a test that verifies that the TaxID will roundtrip being
written and then read.

Best regards

-------------- next part --------------
A non-text attachment was scrubbed...
Name: 0001-Read-NCBI-TaxID-from-OX-lines-of-EMBL-formatted-DNA-.patch
Type: text/x-diff
Size: 5580 bytes
Desc: not available
URL: <http://lists.open-bio.org/pipermail/bioperl-l/attachments/20101221/100cd13c/attachment.bin>

More information about the Bioperl-l mailing list