Re: Missing Medication Frequency and Allergy attributes from MedicationMention [EXTERNAL]

["Miller, Timothy" <Ti...@childrens.harvard.edu>]

Hi Honey,
I created a module last year for doing some medication attribute extraction, but it is not part of core ctakes yet so you would have to integrate it yourself. It uses the typesystem and most of the regular ctakes pipeline so it shouldn't be that difficult.
Check it out here:
https://github.com/tmills/ctakes-ade

If you want to give it a try and have questions I'll be happy to try to help. There is also a ctakes-drugner module that probably does similar things but I don't have experience with it myself.

Tim

________________________________________
From: Honey gandhi <ga...@icloud.com.INVALID>
Sent: Saturday, June 6, 2020 2:53 AM
To: dev@ctakes.apache.org
Subject: Re: Missing Medication Frequency and Allergy attributes from MedicationMention [EXTERNAL]

* External Email - Caution *


Is there any other way to find relationship between medication and its dose/route/frequency or between anatomical site and its sign symptoms?

Thanks,
Honey G.

> On 06-Jun-2020, at 12:09 PM, Peter Abramowitsch <pa...@gmail.com> wrote:
>
> Some granular areas are unfinished in cTakes and in these cases, attributes
> mentioned are just placeholders for functionality that needs to be filled
> in.   I can't speak specifically to Medication Freq/Dose/Route, but much
> work is left to be done and contributed throughout the system.  Bodysite is
> another one of these.  Or conditionality and confidence.  In some cases you
> will never find them populated, or in others you'll find that values can
> only be detected in a small number of contexts.
>
> Unless an army of highly qualified developers and informaticists with free
> time materializes to take it much further, cTakes will always be a work in
> progress.  But many of us have already found it to be highly effective in
> its current form, and some have made private customizations to suit our own
> needs.
>
> Peter
>
> On Fri, Jun 5, 2020 at 2:58 AM Honey gandhi
> <ga...@icloud.com.invalid> wrote:
>
>> Hi
>>
>> We are exploring ctakes capabilities to use it as our NLP engine to parse
>> clinical data.
>>
>> Though we are able to parse the data at high level. We are not able to get
>> values for medication frequency, duration, allergy and other related
>> specifications.
>> It should have ideally populated values for ‘MedicationFrequency',
>> ‘MedicationAllergy' and other related fields in ‘MedicationMention’
>>
>> I have also tried including RelationSubPipe.piper file  from
>> cakes-relation-extractor to my Full.piper files in cakes-web-rest module.
>> But I don’t see any difference this made as I am yet not able to figure
>> out the relation among medication entity and its frequency, dosage etc.
>>
>> We are relatively new to this. Please advise on how to proceed further.
>>
>>
>> Thanks,
>> Honey G.