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[bioontology-support] FW: NCBO bioportal - SO

Colin Batchelor BatchelorC at rsc.org
Tue Mar 23 02:21:42 PDT 2010


Hello support!

Do you know why the Sequence Ontology is in twice?

http://bioportal.bioontology.org/visualize/42321/

Which URL are you taking as the source?

best wishes,
Colin.


-- 
Dr Colin Batchelor MChem MRSC, Senior Informatics Analyst, Informatics R&D 
Informatics Department, 
Royal Society of Chemistry, Thomas Graham House, Cambridge UK CB4 0WF 
batchelorc at rsc.org t: +44 1223 432280 

________________________________________
From: Trish Whetzel [mailto:plwhetzel at gmail.com] 
Sent: 22 March 2010 18:05
To: Colin Batchelor
Cc: Michel Dumontier
Subject: Re: NCBO bioportal - SO

I'm at a meeting today. Would you mind sending to support at bioontology.org?

Thanks!
Trish

On Mon, Mar 22, 2010 at 9:24 AM, Colin Batchelor <BatchelorC at rsc.org> wrote:
Hello,

Yes---we haven't had the top-level term SO:0000000 in ages and ages, so #1 should go go go.

Odd about #2.  Trish: are you working from so.obo or so-xp.obo?  The latter is the canonical one with the formal definitions, the former is the "toy" one.

There are disjoint_from relations between the high-level classes---could that be causing trouble?

Colin.

--
Dr Colin Batchelor MChem MRSC, Senior Informatics Analyst, Informatics R&D
Informatics Department,
Royal Society of Chemistry, Thomas Graham House, Cambridge UK CB4 0WF
batchelorc at rsc.org t: +44 1223 432280

________________________________________
From: Michel Dumontier [mailto:michel.dumontier at gmail.com]
Sent: 22 March 2010 16:15
To: Trish Whetzel; Colin Batchelor
Subject: NCBO bioportal - SO

Hello,
  I'm trying to figure out what's going on with the NCBO bioportal rendering of SO. 

First, I see two entries:

1. Sequence Ontology (SO)
2. Sequence types and features (SO)

looks like the second is newer, so should the first one disappear?

Second, the rendering of 2. appears incomplete, even though i can search and find terms:

http://bioportal.bioontology.org/visualize/42321/


m.

--
Michel Dumontier
Associate Professor of Bioinformatics
Carleton University
http://dumontierlab.com
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