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Overview of Assertion

The assertion annotator provides a mechanism for examining and documenting the real-world implications for annotations in text. For example, one might assume that a mention of "diabetes" in text implies that patient has diabetes. However, the assertion module will consider whether a named entity or event is negated, uncertain, or conditional. Additionally, the subject of the statement may be someone other than the patient (e.g., the patient's father, for "father has hx of diabetes"), or the use of a term might be generic (e.g., "gave pt a diabetes brochure"). Each of these attributes illustrate how the "assertion" value of a named entity might be marked.

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The assertion module and the NE Contexts annotator have overlapping functionality, and only one should be used at a time.

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The default means of running the assertion annotator is to use an aggregate analysis engine that includes assertion/desc/AssertionMiniPipelineAnalysisEngine.xml. This is itself an aggregate analysis engine, consisting of the components listed below.

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