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JointBioER

Dependency package

JointBioER uses the following dependencies:

Content

  • JointBioER

    • DDI: the data and source code of our JointBioER on the DDI 2013 corpus
    • CPR: the data and source code of our JointBioER on the CPR corpus

  • Pipeline

    • DDI
      • NER_DDI: NER of pipeline on the DDI 2013 corpus
      • RE_DDI: RE of pipeline on the DDI 2013 corpus
    • CPR
      • NER_CPR: NER of pipeline on the CPR corpus
      • RE_DDI: RE of pipeline on the CPR corpus

Train a pipeline model

To train a pipeline model, you need to train a NER model, and then train a RE model.

for example:

cd ./Pipeline/DDI/NER_DDI/src
python bilstm_crf_train.py
cd  ./Pipeline/DDI/RE_DDI/src
python bilstm_re_keras.py

Train a JointBioER model

Train our JointBioER model on the DDI 2013 corpus:

cd ./JointBioER/DDI/src
python bilstm_crf_train_ddi.py

Train our JointBioER model on the CPR corpus:

cd ./JointBioER/CPR/src
python bilstm_crf_train_cpr.py