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[bioontology-support] Context Value in Annotator Service

Vivek Juluri vivek at mwebware.com
Fri Apr 13 06:09:18 PDT 2012


Thanks for your response Clement, i will check that parameter and i will
get back to you if i have any issues.

Regards,
Vivek

On Fri, Apr 13, 2012 at 6:02 PM, Clement Jonquet <jonquet at lirmm.fr> wrote:

> Hi Vivek, ****
>
> ** **
>
> Be sure to have the parameter withContext=true, otherwise you will not see
> the <context> element in the returned  XML.****
>
> ** **
>
> FYI: the withContext parameter is here if you explicitly wants to know why
> each annotation (direct or not) was created. For instance, annotating the
> text “skin melanoma and melanoma are bad cancer” with only ontology 46453
> will return:****
>
> **-          **2 annotations with term 46453/DOID:1909 but with different
> contexts if withContext=true****
>
> **-          **1 annotation with term 46453/DOID:1909 but without context
> if withContext=false.****
>
> ** **
>
> In that second case what you want to look at is the score of the
> annotation that represents the fact that in your text “melanoma” was more
> present than “cancer”.****
>
> Try it out at: http://rest.bioontology.org/test_oba.html ****
>
> ** **
>
> I hope it helps ;)****
>
> Clement****
>
> ** **
>
>
> ---------------------------------------------------------------------------------------------------
> ****
>
> Dr. *Clement JONQUET*  -  *PhD in Informatics  -  Assistant Professor*****
>
> ** **
>
> jonquet at lirmm.fr****
>
> http://www.lirmm.fr/~jonquet ****
>
> ** **
>
>                 *University of Montpellier*
>
>                 LIRMM****
>
>                 161 rue Ada
>                 34095 Montpellier Cdx 5****
>
>                 France  ****
>
> ** **
>
> Tel:                +33/4 67 14 97 43     ****
>
> Fax:               +33/4 67  41 85 00****
>
> Skype:          clementpro****
>
> Twitter:        @jonquet_lirmm <http://twitter.com/jonquet_lirmm>****
>
> Slideshare:  jonquet <http://www.slideshare.net/jonquet>****
>
> ** **
>
>
> ---------------------------------------------------------------------------------------------------
> ****
>
> ** **
>
> ** **
>
> ** **
>
> *De :* bioontology-support-bounces at lists.stanford.edu [mailto:
> bioontology-support-bounces at lists.stanford.edu] *De la part de* Trish
> Whetzel
> *Envoyé :* vendredi 13 avril 2012 11:08
> *À :* Vivek Juluri
> *Cc :* support at bioontology.org
> *Objet :* Re: [bioontology-support] Context Value in Annotator Service****
>
> ** **
>
> Hi Vivek, ****
>
> ** **
>
> The context or characters matched from the input text can be found by
> using the <from> and <to> attributes within the annotationBean under
> <context>.****
>
> ** **
>
> Trish  ****
>
> ** **
>
> ** **
>
> ****
>
> ** **
>
> ** **
>
> ** **
>
> On Apr 10, 2012, at 10:37 AM, Vivek Juluri wrote:****
>
>
>
> ****
>
>
> ****
>
> Hi,****
>
> ** **
>
> In my current application i am using Annotator Service. I am using rest
> service *http://rest.bioontology.org/obs/annotator *and i am getting XML
> properly. but in that XML i am unable to find Context value.****
>
> ** **
>
> In the Biportal site http://bioportal.bioontology.org/annotator it is
> showing the Context in the result grid. How should i get the Context value
> from XML?****
>
> ** **
>
> Please let me know if need any more information from my side.****
>
> ** **
>
> -- ****
>
> Thanks,****
>
> Vivek****
>
>
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/bioontology-support****
>
> ** **
>



-- 
Thanks,
Vivek
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