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From "Miller, Timothy" <Timothy.Mil...@childrens.harvard.edu>
Subject Re: Unable to understand the importance of attributes in IdentifiedAnnotations [EXTERNAL]
Date Fri, 05 Jan 2018 11:58:35 GMT
Uncertainty is when the text indicates some hedging about the concept:
"possible asthma" should have asthma as an IdentifiedAnnotation with the uncertainty flag
set to 1.
This is done by machine learning and it is not easy so it is not perfect.

HistoryOf is for concepts that are explicitly in patient history, often in a history section.
"history of lymphoma as a child"
lymphoma should have its history flag set to 1.
This is done by machine learning and it is not easy so it is not perfect.

Confidence is a field that I don't believe gets set by any current annotators, but in theory
it is for methods that might use statistical methods that output a score to set the score
there.
The cTAKES dictionary lookup either hits or doesn't, so it doesn't set that score.

DiscoveryTechnique is a way to flag which entities were annotated by which annotator, since
it's possible to have, e.g., multiple clinical concept taggers. We use it occasionally internally
to separate gold standard entities from system-discovered entities (in a machine learning
evaluation) but I don't know if any standard pipeline components set it.

Tim

________________________________________
From: Kumari,Puja <Puja.Kumari3@cerner.com>
Sent: Friday, January 5, 2018 12:03 AM
To: dev@ctakes.apache.org
Subject: Re: Unable to understand the importance of attributes in IdentifiedAnnotations [EXTERNAL]

Hi,



Thanks for the replies but I am still not able to understand the significance of the attributes
such as Uncertainty, HistoryOf, Confidence, DiscoveryTechniques.

Can anyone give some examples or any information which will help me to understand these concepts
in more depth?



Thanks.

Puja Kumari



On 1/4/18, 5:30 PM, "Gandhi Rajan Natarajan" <Gandhi.Natarajan@arisglobal.com> wrote:



    Try out this link - "https://urldefense.proofpoint.com/v2/url?u=https-3A__na01.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Fcwiki.apache.org-252Fconfluence-252Fdisplay-252FCTAKES-252FcTAKES-252B4.0-252B-2D-252BAssertion-26data-3D02-257C01-257CPuja.Kumari3-2540cerner.com-257C989437995db145fcbaa808d5536ac609-257Cfbc493a80d244454a815f4ca58e8c09d-257C0-257C0-257C636506640417310103-26sdata-3D8WN2HIq9RiCiZJiTtp0i6Sk7ZVDMgNGoUbJRW1Hevp4-253D-26reserved-3D0&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=Heup-IbsIg9Q1TPOylpP9FE4GTK-OqdTDRRNQXipowRLRjx0ibQrHEo8uYx6674h&m=muQ5_Uh4Q-5Uui87e9eAWy2afrJRgcg4FrOmy2VyFP8&s=0NlpH8OCzjaVbZq3yTy4pQcWgTYtUKJOD5orbrpKGro&e="



    Regards,

    Gandhi





    -----Original Message-----

    From: Kumari,Puja [mailto:Puja.Kumari3@cerner.com]

    Sent: Thursday, January 04, 2018 3:11 PM

    To: dev@ctakes.apache.org

    Subject: Re: Unable to understand the importance of attributes in IdentifiedAnnotations



    Hi,



    Thanks for your reply Krishnareddy but the link given says “page not found”. Any other
suggestions/links that you can share would be appreciable.



    Thanks

    Puja Kumari



    On 1/4/18, 2:51 PM, "Krishnareddy" <krishnareddyn@kpmd.biz> wrote:



        Hi,



          You can find related information about these attributes in following link



        _*https://urldefense.proofpoint.com/v2/url?u=https-3A__na01.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Fcwiki.apache.org-252Fconfluence-252Fdisplay-252FCTAKES-252FcTAKES-252B4.0-252B-2D-252BAssertion-2A-5F-26data-3D02-257C01-257CPuja.Kumari3-2540cerner.com-257C738752ad0ee24b8bae6208d553547f25-257Cfbc493a80d244454a815f4ca58e8c09d-257C0-257C0-257C636506544740520408-26sdata-3DTjBeskHtrWn8ycT16NaoDopB8bTX0SJTNfWMOG8-252B5fo-253D-26reserved-3D0&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=Heup-IbsIg9Q1TPOylpP9FE4GTK-OqdTDRRNQXipowRLRjx0ibQrHEo8uYx6674h&m=muQ5_Uh4Q-5Uui87e9eAWy2afrJRgcg4FrOmy2VyFP8&s=NmbWV7FVYRENHOhWtMCOu2UoOaw-esE6uyr0W8KKtpA&e=





        Thank You



        Krishna Reddy





        On Thursday 04 January 2018 12:31 PM, Kumari,Puja wrote:

        > Hi,

        > I am working on IdentifiedAnnotations in apache cTAKES and I am not able to 
interpret the meaning of the following attributes under IdentifiedAnnotations:

        > 1.Uncertainty

        > 2.History

        > 3.Confidence

        > 4.Discovery Techniques

        >

        > What is the importance of these attributes?

        > How can we make use of these to make our work efficient?

        > Any suggestion / link to understand more would be helpful.

        >

        >

        > Thanks.

        > Puja Kumari

        > puja.kumari3@cerner.com<mailto:puja.kumari3@cerner.com>

        >

        >

        >

        >

        >

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