Carlos-Francisco Méndez-Cruz

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# Organism annotation in sentences with regulatory interactions
## Installation
1. Download CoreNLP from https://stanfordnlp.github.io/CoreNLP/download.html
2. Python modules progress and OGER:
```shell
$ pip3 install progress
$ pip3 install git+https://github.com/OntoGene/OGER.git
```
## Run
1. Set CLASSPATH
```shell
$ export CLASSPATH=/path/STANFORD_CORENLP/stanford-corenlp-full-2017-06-09/*
```
2. Create new dir in source
```shell
$ cd source
$ mkdir newdir
```
3. Save your text file with sentences in newdir
4. Run python script with Python 3.x
```shell
$ cd bind
$ python specie_annotation.py --file ../source/newdir/sentences.txt
```
## Acknowledgments
This work was supported by UNAM-PAPIIT IA203420.
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