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[gofriends] GO visualisation tool?

Zhiliang Hu hu at animalgenome.org
Thu Jan 10 08:21:30 PST 2008


Rachael,

For the purpose you describe, perhaps you may like to try this tool out:
http://www.animalgenome.org/bioinfo/tools/countgo/

Zhiliang


On Thu, 10 Jan 2008, Rachael Huntley wrote:

> Date: Thu, 10 Jan 2008 16:00:23 +0000
> From: Rachael Huntley <huntley at ebi.ac.uk>
> To: Jim Hu <jimhu at tamu.edu>
> Cc: go-friends at genome.stanford.edu
> Subject: Re: [gofriends] GO visualisation tool?
> 
> Hi Jim,
>
> He has done a microarray experiment and wants to cluster the genes
> according to GO, so he wants to see the GO tree with the genes displayed
> under the GO terms they are annotated to. I don't think AmiGO does this
> sort of thing.
>
> Rachael.
>
> Jim Hu wrote:
>
>> Hi Rachael,
>>
>> I'm not sure I understand what the user wants to do.  Doesn't AmiGO
>> place genes under the appropriate branches based on annotations?  Is
>> this not the desired kind of visualization?  Or do they want something
>> different?
>>
>> Jim
>>
>>
>> On Jan 10, 2008, at 7:46 AM, Rachael Huntley wrote:
>>
>>> Dear all,
>>>
>>> I have had this query from a user, does anyone know of a tool that
>>> can do this?
>>>
>>>> Do you know of any GO viewer that allows you to visualise the  GO
>>> structure and place genes with a specific annotation under that
>>>  branch of the tree?
>>> <
>>>
>>> Thanks,
>>> Rachael.
>>>
>>> --
>>> Rachael Huntley Ph.D.
>>>
>>> European Bioinformatics Institute-EMBL
>>> Wellcome Trust Genome Campus
>>> Hinxton
>>> Cambridge CB10 1SD
>>> United Kingdom
>>> Tel: +44 (0)1223 492515
>>> Fax: +44 (0)1223 494468
>>>
>>> E-mail: huntley at ebi.ac.uk <mailto:huntley at ebi.ac.uk>
>>> URL: http://www.ebi.ac.uk/GOA

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