Mailing-List: contact dev-help@ctakes.apache.org; run by ezmlm
Precedence: bulk
Reply-To: dev@ctakes.apache.org
MIME-Version: 1.0
In-Reply-To: <20ba22aa11b340d08ab09adfc89e7141@CHEXMAIL1A.CHBOSTON.ORG>
References: 
 <CA+jqmuz7qZEc+5+GUQsYjHvUeiayNfcdQ7jM9cOHJhzUhiScNQ@mail.gmail.com>
 <eabb6b850a1f4c83aaca7bec979bddbb@CHEXMAIL4A.CHBOSTON.ORG>
 <20ba22aa11b340d08ab09adfc89e7141@CHEXMAIL1A.CHBOSTON.ORG>
From: David Kincaid <kincaid.dave@gmail.com>
Date: Tue, 8 Dec 2015 11:47:04 -0600
Message-ID: 
 <CAPv_U8fJX_Z2Ae06-Rdta3Sm_8=LDFj0fq6B0hYXqqZUJXdDCA@mail.gmail.com>
Subject: Re: ctakes with icd10
To: "dev@ctakes.apache.org" <dev@ctakes.apache.org>
Content-Type: multipart/alternative; boundary=001a11c2c7be1e9f2005266692fe

--001a11c2c7be1e9f2005266692fe
Content-Type: text/plain; charset=UTF-8

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
>

--001a11c2c7be1e9f2005266692fe--