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From Pei Chen <pei.c...@wiredinformatics.com>
Subject Re: ctakes with icd10
Date Tue, 08 Dec 2015 18:51:27 GMT
Hi Dave,
If you happen to still have the instructions,
I think it would be great to share what you have on the wiki as it seems to be a common request
(let me know if you need write access).

—Pei


> On Dec 8, 2015, at 12:47 PM, David Kincaid <kincaid.dave@gmail.com> wrote:
> 
> This seems like a pretty common request and with such an old version of
> UMLS database shipped with cTAKES it's only going to get worse. I've been
> wanting to build a dictionary using the latest UMLS release (as well as a
> custom database), so would be happy to write up the steps as I go through
> it. That assumes that I can dig up the instructions in the dev list.
> 
> - Dave
> 
> On Tue, Dec 8, 2015 at 11:36 AM, Finan, Sean <
> Sean.Finan@childrens.harvard.edu> wrote:
> 
>> Hi Alaa,
>> 
>> The -shortest- answer is that you'll need to run the dictionary creation
>> tool.  There are instructions in older devlist threads.  By default the
>> dictionary creation tool does add icd9 and icd10 tables to the dictionary.
>> The problem is that in Umls 2011AB those codes weren't very well
>> populated.  The 2015AB icd# set is much more rich so those tables should be
>> pretty good.  Then in ctakes you would look up annotations by icd9 or icd10
>> codes instead of by cui:
>> OntologyConceptUtil.getAnnotationsByCode( jcas, lookupWindow, icd#Code );
>> OntologyConceptUtil.getAnnotationsByCode( jcas, icd#Code );
>> 
>> Sean
>> 
>> -----Original Message-----
>> From: Savova, Guergana [mailto:Guergana.Savova@childrens.harvard.edu]
>> Sent: Tuesday, December 08, 2015 12:17 PM
>> To: dev@ctakes.apache.org
>> Subject: RE: ctakes with icd10
>> 
>> Hi Alaa,
>> You need to create a resource off the terminology/ontology you want to use
>> (in this case ICD9 or ICD10). Then run that resource with cTAKES for the
>> fast dictionary lookup. There is cTAKES code and some documentation on how
>> to create that resource. By default, cTAKES runs with a resource created
>> from the English version of SNOMED CT and RxNORM.
>> Hope this helps.
>> --Guergana
>> 
>> -----Original Message-----
>> From: Alaa al Barari [mailto:alaa.albarari@gmail.com]
>> Sent: Tuesday, December 8, 2015 10:01 AM
>> To: dev@ctakes.apache.org
>> Subject: ctakes with icd10
>> 
>> Hi,
>> 
>> I downloaded Latest umls version, and I want to know how to make ctakes
>> work with icd10 and icd9.
>> 
>> 
>> Thanks
>> 


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