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Update index.md
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agrawalm authored Nov 17, 2020
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Expand Up @@ -11,12 +11,12 @@ However, this data often exists only in clinical text, and not in any structured
## Features
### Pre-Annotations
Sometimes concept mentions are simple and straightforward for algorithms to recognize. In these cases, we allow for <i>pre-annotations</i>; these pre-outline the suggested span of text and pre-label it. The user can then to choose to accept in just a single click, or modify or delete.
Sometimes concept mentions are simple and straightforward for algorithms to recognize. In these cases, <i>pre-annotations</i> can save annotators time and energy. <i>Pre-annotations</i> outline the suggested span of text alongside its predicted label. The user can then to choose to accept the machine suggestion in just a single click, or modify or delete.
<figure>
<img src="files/suggestion.png" width="500">
<figcaption>In this image, there are 3 pre-annotations: on flagyl, BUN, and NGT.</figcaption>
</figure>
Our system is flexible and allows the user to set the outputs of any clinical entity extraction system (MetaMap, cTAKES, ClinicalBERT) as pre-annotations. A user just provides the spans and expected labels in a CSV file; we provide scripts to generate these CSV's from dictionary lookups and from scispaCy.
Our system can flexibly set the <i>pre-annotations</i> to the outputs of any clinical entity extraction system (MetaMap, cTAKES, ClinicalBERT). A user just provides the spans and expected labels in a CSV file; we provide scripts to generate these CSV's from dictionary lookups and from scispaCy.

### Recommendations
<img src="files/rec.png" width="500">
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