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From Anirban Chakraborti <chakraborti.anir...@googlemail.com>
Subject Fwd: CEM Template Filler
Date Wed, 07 May 2014 15:44:48 GMT
Thanks again.

Would you happen to have a template of CAS consumer which I can customize.

What I need is to structure a template so that all medications and
downstream concepts, all disease, all anatomical site mentions are grouped
together for a particular processed record.

Anir


On Wed, May 7, 2014 at 12:15 AM, Masanz, James J. <Masanz.James@mayo.edu>wrote:

>  The XXXXXXXMention annotations such  DiseaseDisorderMention,
> SignSymptomMention correspond to the CEMs.
>
>
>
> You could customize a CAS Consumer to just output the annotations you are
> interested in, plus the related annotation such as OntologyConcept and
> UmlsConcept and the MedicationXXXX annotations like MedicationDosage and
> MedicationDosageModifier.
>
>
>
> Perhaps we are thinking of different things when we refer to CEMs.  What
> do you mean by CEMs or where did you hear about CEMs?
>
>
>
> There is also a data normalization pipeline that takes cTAKES output and
> stores it into a database
>
> http://informatics.mayo.edu/sharp/index.php/Data_Normalization
>
>
>
> But I suspect that is more involved than what you are looking for and I’m
> not sure if that output is quite what you are looking for either
>
>
>
>
>
> *From:* Anirban Chakraborti [mailto:chakraborti.anirban@googlemail.com]
> *Sent:* Tuesday, May 06, 2014 5:30 AM
> *To:* user@ctakes.apache.org
> *Subject:* CEM Template Filler
>
>
>
> Hi,
>
>
>
> I ran Aggregatemplatefiller.xml on a text file and got the attached output
> in XMI format. How do I convert the same into CEMs supported by Ctakes.
>
>
>
> The output by itself is very bulky to read.
>
>
>
> Anir
>

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