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Philip Bordner
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EHRKit-2022
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   <img src="https://github.com/Yale-LILY/EHRKit/blob/master/wrapper_functions/EHRLogo.png?raw=true" alt="EHRKit"/>
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# EHRKit: A Python Natural Language Processing Toolkit for Electronic Health Record Texts

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# EHRKit: A Python Natural Language Processing Toolkit for Electronic Health Record Texts





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This library aims at processing medical texts in electronic health records. We provide specific functions to access the [MIMIC-III](https://physionet.org/content/mimiciii-demo/) record efficiently; the method includes searching by record ID, searching similar records, searching with an input query. We also support functions for some NLP tasks, including abbreviation disambiguation, extractive and abstractive summarization. For more specific evaluaiton, please check this [pre-print]([url](https://arxiv.org/abs/2204.06604)).

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This library aims at processing medical texts in electronic health records. We provide specific functions to access the [MIMIC-III](https://physionet.org/content/mimiciii-demo/) record efficiently; the method includes searching by record ID, searching similar records, searching with an input query. We also support functions for some NLP tasks, including abbreviation disambiguation, extractive and abstractive summarization. For more specific evaluaiton, please check this [pre-print]([url](https://arxiv.org/abs/2204.06604)).





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Moreover, if users want to deal with general medical texts, we integrate third-party libraries, including [hugginface](https://huggingface.co/), [scispacy](https://allenai.github.io/scispacy/), [allennlp](https://github.com/allenai/allennlp), [stanza](https://stanfordnlp.github.io/stanza/), and so on. Please checkout the special verison of this library, [EHRKit-WF](https://github.com/Yale-LILY/EHRKit/tree/master/wrapper_functions).

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Moreover, if users want to deal with general medical texts, we integrate third-party libraries, including [hugginface](https://huggingface.co/), [scispacy](https://allenai.github.io/scispacy/), [allennlp](https://github.com/allenai/allennlp), [stanza](https://stanfordnlp.github.io/stanza/), and so on. Please checkout the special verison of this library, [EHRKit-WF](https://github.com/Yale-LILY/EHRKit/tree/master/wrapper_functions).





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   <img src="https://github.com/Yale-LILY/EHRKit-2022/blob/main/ehrkit.jpg?raw=true" alt="EHRKit"/>

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   <img src="https://github.com/Yale-LILY/EHRKit-2022/blob/main/ehrkit.jpg?format=raw" alt="EHRKit"/>





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## Table of Contents

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## Table of Contents





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1. [Updates](#updates)

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1. [Updates](#updates)





  
  
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- Section Detection

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- Section Detection





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- UMLS Concept Extraction

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- UMLS Concept Extraction





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