[Bioperl-l] Fwd: question

Smithies, Russell Russell.Smithies at agresearch.co.nz
Wed Jun 6 21:49:34 EDT 2012


If I read the question right, you want to set the "SOURCE" and "ORGANISM" tags above the "FEATURE" tag.
Try here:
http://www.bioperl.org/wiki/HOWTO:Feature-Annotation#The_Species_Object
Though I note it's deprecated so someone else may be able to offer some assistance.

--Russell

-----Original Message-----
From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-bounces at lists.open-bio.org] On Behalf Of Jason Stajich
Sent: Thursday, 7 June 2012 10:21 a.m.
To: BioPerl List; Paz Tapia Ramírez
Subject: [Bioperl-l] Fwd: question

Please ask your question on the bioperl list too.

However, I don't really understand your question. What do you want your output to look like that is difference from this.

You should show what code you have been trying so someone can help correct it. 

Begin forwarded message:

> From: Paz Tapia Ramírez <pvtapiar at gmail.com>
> Subject: Fwd: question
> Date: June 6, 2012 3:08:41 PM PDT
> To: <jason.stajich at ucr.edu>
> 
> Hello, I've been reading some answers from you in creating of genbank 
> files with bioperl . I have a question, how it is to set ORGANISM 
> before FEATURES?
> 
> 
> SOURCE "My organism"
>  ORGANISM "My organism"
> 
> FEATURES             Location/Qualifiers
>     source          1..76453
>                     /organism="Dekkera bruxellensis"
>                     /organelle="mitochondrion"
>                     /mol_type="genomic DNA"
>                     /strain="CBS 2499"
>                     /db_xref="taxon:5007"
>     gene            1..3643
>                     /gene="rnl"
> 
> Please help me,
> 
> Best Regards,
> 
> Paz

Jason Stajich
jason.stajich at gmail.com
jason at bioperl.org


_______________________________________________
Bioperl-l mailing list
Bioperl-l at lists.open-bio.org
http://lists.open-bio.org/mailman/listinfo/bioperl-l
=======================================================================
Attention: The information contained in this message and/or attachments
from AgResearch Limited is intended only for the persons or entities
to which it is addressed and may contain confidential and/or privileged
material. Any review, retransmission, dissemination or other use of, or
taking of any action in reliance upon, this information by persons or
entities other than the intended recipients is prohibited by AgResearch
Limited. If you have received this message in error, please notify the
sender immediately.
=======================================================================



More information about the Bioperl-l mailing list