Re: Query on ctakes [EXTERNAL]

["Finan, Sean" <Se...@childrens.harvard.edu>]

Hi Amal,

Could you please provide a full example sentence with expected vs. produced output?  ctakes isn't perfect but something like "fever" should be tagged.

Thanks,
Sean
________________________________________
From: amal.m@acolade.co.in <am...@acolade.co.in>
Sent: Friday, March 9, 2018 12:59 AM
To: dev@ctakes.apache.org
Subject: Query on ctakes [EXTERNAL]

Hello, Am a newbie to cTakes.
So far I am able to complete user installation and able to generate the processed output.
I am finding the extracted data NOT getting tagged with relevant concepts(contexts) like Drugs, Disease. Lab results etc...which is a real concern.
 Would appreciate if somebody could help me to achieve tagging of the extracted data.
 (e:g:- Fever to be tagged as Problem/Disease and abdominopelvic CT as Test(lab test))


Thanks & Regards
 AMAL M
9633746869

RE: Query on ctakes [EXTERNAL]

[Gandhi Rajan Natarajan <Ga...@arisglobal.com>]

Hi Amal,

If I am right, the grouping of related information together is not yet available in cTAKES out of the box.

Also to generate output in a structured format, you can make use of HTMLWriter. For more detailed info on this, you can check out Sean’s response for “Output formats - CPE - cTAKES - Persist in database<http://mail-archives.apache.org/mod_mbox/ctakes-dev/201803.mbox/ajax/%3CCANs913CB3HVPJOu_EittK%3DMV9H6kD7p6U98xAbWO5QPNV0kd2w%40mail.gmail.com%3E>” thread under  http://mail-archives.apache.org/mod_mbox/ctakes-dev/201803.mbox/browser

Regards,
Gandhi

From: amal.m@acolade.co.in [mailto:amal.m@acolade.co.in]
Sent: Monday, March 12, 2018 4:09 PM
To: dev@ctakes.apache.org
Subject: RE: Query on ctakes [EXTERNAL]

Hi Sean,

Please find the attachment of input and output text of ctakes.

From the ctakes output we can't identify which one is drug, disease, labtest etc.
(for example : tocilizumab is a drug, but the output text may not specify what is it?)

Also, is there a way where we can group related information together? (e.g:- For each drug, identify the dosage/ root of administration/dosage strength/ Dosage Frequency etc?)

How can we generate above expected output in a structured format? (HTML/JSON etc)

Thanks & Regards
 AMAL M
9633746869



--------- Original Message ---------
Subject: Re: Query on ctakes [EXTERNAL]
From: "Finan, Sean" <Se...@childrens.harvard.edu>>
Date: 3/9/18 7:46 pm
To: "dev@ctakes.apache.org<ma...@ctakes.apache.org>" <de...@ctakes.apache.org>>

Hi Amal,

Could you please provide a full example sentence with expected vs. produced output? ctakes isn't perfect but something like "fever" should be tagged.

Thanks,
Sean
________________________________________
From: amal.m@acolade.co.in<ma...@acolade.co.in> <am...@acolade.co.in>>
Sent: Friday, March 9, 2018 12:59 AM
To: dev@ctakes.apache.org<ma...@ctakes.apache.org>
Subject: Query on ctakes [EXTERNAL]

Hello, Am a newbie to cTakes.
So far I am able to complete user installation and able to generate the processed output.
I am finding the extracted data NOT getting tagged with relevant concepts(contexts) like Drugs, Disease. Lab results etc...which is a real concern.
Would appreciate if somebody could help me to achieve tagging of the extracted data.
(e:g:- Fever to be tagged as Problem/Disease and abdominopelvic CT as Test(lab test))


Thanks & Regards
AMAL M
9633746869
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RE: Query on ctakes [EXTERNAL]

[am...@acolade.co.in]

Hi Sean,
Please find the attachment of input and output text of ctakes.
 
From the ctakes output we can't identify which one is drug, disease, labtest etc.
(for example : tocilizumab is a drug, but the output text may not specify what is it?)
 Also, is there a way where we can group related information together? (e.g:- For each drug, identify the dosage/ root of administration/dosage strength/ Dosage Frequency etc?)
 How can we generate above expected output in a structured format? (HTML/JSON etc)
 
 
Thanks & Regards 
 AMAL M
9633746869
 
 
 
--------- Original Message --------- Subject: Re: Query on ctakes [EXTERNAL]
From: "Finan, Sean" <Se...@childrens.harvard.edu>
Date: 3/9/18 7:46 pm
To: "dev@ctakes.apache.org" <de...@ctakes.apache.org>

Hi Amal,
 
 Could you please provide a full example sentence with expected vs. produced output? ctakes isn't perfect but something like "fever" should be tagged.
 
 Thanks,
 Sean
 ________________________________________
 From: amal.m@acolade.co.in <am...@acolade.co.in>
 Sent: Friday, March 9, 2018 12:59 AM
 To: dev@ctakes.apache.org
 Subject: Query on ctakes [EXTERNAL]
 
 Hello, Am a newbie to cTakes.
 So far I am able to complete user installation and able to generate the processed output.
 I am finding the extracted data NOT getting tagged with relevant concepts(contexts) like Drugs, Disease. Lab results etc...which is a real concern.
 Would appreciate if somebody could help me to achieve tagging of the extracted data.
 (e:g:- Fever to be tagged as Problem/Disease and abdominopelvic CT as Test(lab test))
 
 
 Thanks & Regards
 AMAL M
 9633746869