adding new term to cvterm

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adding new term to cvterm

Dieter Best
Hello there,
 
I like to add new terms to cvterm. How do I go about this? Is there a tool available to do that?
 
Thanks.
 
 


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Re: adding new term to cvterm

Chris Mungall-3

The standard method is to develop an ontology in oboedit (http://oboedit.org 
) and then load the resulting obo file in using gmod tools

On Jul 19, 2010, at 12:00 PM, Dieter Best wrote:

> Hello there,
>
> I like to add new terms to cvterm. How do I go about this? Is there  
> a tool available to do that?
>
> Thanks.
>
>
>
> ------------------------------------------------------------------------------
> This SF.net email is sponsored by Sprint
> What will you do first with EVO, the first 4G phone?
> Visit sprint.com/first -- http://p.sf.net/sfu/sprint-com-first_______________________________________________
> Gmod-schema mailing list
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> https://lists.sourceforge.net/lists/listinfo/gmod-schema


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Re: adding new term to cvterm

Dieter Best
What are those tools? I just want to add a few new terms. Is there no lightweight approach to add one new term for example.

 

From: Chris Mungall <[hidden email]>
To: Dieter Best <[hidden email]>
Cc: [hidden email]
Sent: Mon, July 19, 2010 1:47:45 PM
Subject: Re: [Gmod-schema] adding new term to cvterm


The standard method is to develop an ontology in oboedit (http://oboedit.org) and then load the resulting obo file in using gmod tools

On Jul 19, 2010, at 12:00 PM, Dieter Best wrote:

> Hello there,
>
> I like to add new terms to cvterm. How do I go about this? Is there a tool available to do that?
>
> Thanks.
>
>
>
> ------------------------------------------------------------------------------
> This SF.net email is sponsored by Sprint
> What will you do first with EVO, the first 4G phone?
> Visit sprint.com/first -- http://p.sf.net/sfu/sprint-com-first_______________________________________________
> Gmod-schema mailing list
> [hidden email]
> https://lists.sourceforge.net/lists/listinfo/gmod-schema



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Re: adding new term to cvterm

Chris Mungall-3

There's nothing to stop you doing a SQL INSERT - but I'd recommend you  
follow standard practice and maintain obo files for all the cvs you use.

On Jul 19, 2010, at 2:06 PM, Dieter Best wrote:

> What are those tools? I just want to add a few new terms. Is there  
> no lightweight approach to add one new term for example.
>
>
> From: Chris Mungall <[hidden email]>
> To: Dieter Best <[hidden email]>
> Cc: [hidden email]
> Sent: Mon, July 19, 2010 1:47:45 PM
> Subject: Re: [Gmod-schema] adding new term to cvterm
>
>
> The standard method is to develop an ontology in oboedit (http://oboedit.org 
> ) and then load the resulting obo file in using gmod tools
>
> On Jul 19, 2010, at 12:00 PM, Dieter Best wrote:
>
> > Hello there,
> >
> > I like to add new terms to cvterm. How do I go about this? Is  
> there a tool available to do that?
> >
> > Thanks.
> >
> >
> >
> >  
> ------------------------------------------------------------------------------
> > This SF.net email is sponsored by Sprint
> > What will you do first with EVO, the first 4G phone?
> > Visit sprint.com/first -- http://p.sf.net/sfu/sprint-com-first_______________________________________________
> > Gmod-schema mailing list
> > [hidden email]
> > https://lists.sourceforge.net/lists/listinfo/gmod-schema
>
>
>


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Re: adding new term to cvterm

Robert Buels
In reply to this post by Dieter Best
Hi Dieter,

You probably want gmod_load_cvterms.pl, which loads cvterms from .obo
files.  If you have installed Chado and its attendant scripts and
modules, you should be able to do 'perldoc gmod_load_cvterms.pl' to see
the script's documentation.

Hope this helps!

Rob

Dieter Best wrote:

> What are those tools? I just want to add a few new terms. Is there no
> lightweight approach to add one new term for example.
>
>  
> ------------------------------------------------------------------------
> *From:* Chris Mungall <[hidden email]>
> *To:* Dieter Best <[hidden email]>
> *Cc:* [hidden email]
> *Sent:* Mon, July 19, 2010 1:47:45 PM
> *Subject:* Re: [Gmod-schema] adding new term to cvterm
>
>
> The standard method is to develop an ontology in oboedit
> (http://oboedit.org) and then load the resulting obo file in using gmod
> tools
>
> On Jul 19, 2010, at 12:00 PM, Dieter Best wrote:
>
>  > Hello there,
>  >
>  > I like to add new terms to cvterm. How do I go about this? Is there a
> tool available to do that?
>  >
>  > Thanks.
>  >
>  >
>  >
>  >
> ------------------------------------------------------------------------------
>  > This SF.net <http://sf.net/> email is sponsored by Sprint
>  > What will you do first with EVO, the first 4G phone?
>  > Visit sprint.com/first <http://sprint.com/first> --
> http://p.sf.net/sfu/sprint-com-first_______________________________________________
>  > Gmod-schema mailing list
>  > [hidden email]
> <mailto:[hidden email]>
>  > https://lists.sourceforge.net/lists/listinfo/gmod-schema
>
>
>
> ------------------------------------------------------------------------
>
> ------------------------------------------------------------------------------
> This SF.net email is sponsored by Sprint
> What will you do first with EVO, the first 4G phone?
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>
>
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> _______________________________________________
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