Generate-and-Rank-ConNorm

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Generate-and-Rank-ConNorm

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Generate-and-Rank Framework with Semantic Type Regularization for Biomedical Concept Normalization

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# Generate-and-Rank-ConNorm
 [Generate-and-Rank Framework with Semantic Type Regularization for Biomedical Concept Normalization](https://www.aclweb.org/anthology/2020.acl-main.748/)

## Setup
* We recommend Python 3.7 or higher. The code does **not** work with Python 2.7.
* BERT-based multi-class classifier and BERT-based listwise classifier
  are implemented with PyTorch (at least 1.3.0) using [transformers v3.0.2](https://github.com/huggingface/transformers).
* Lucene-based dictionary look-up system is developed using the [lucene-8.1.1](https://lucene.apache.org/).

## Getting Started

### Candidate Generator
* [BERT-based multi-class classifier](https://github.com/dongfang91/Generate-and-Rank-ConNorm/tree/master/Generator/Multiclass): Generator/Multiclass/
* [Lucene-based dictionary look-up system](https://github.com/dongfang91/Generate-and-Rank-ConNorm/tree/master/Generator/Lucene): Generator/Lucene/

### Candidate ranker
* [BERT-based listwise classifier](https://github.com/dongfang91/Generate-and-Rank-ConNorm/tree/master/Ranker): Ranker/

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