BIONER - Named Entity Recognition for BioMedical datasets

Experiment

python run_bert_crf_ner.py \
    --data_path ./data \
    --dataset bc2gm \
    --train_fn train.txt \
    --test_fn test.txt \
    --additional_data True \
    --use_bilstm True

List of datasets:

• bc2gm
• bc4chemdner
• bc5cdr_chem
• bc5cdr_disease
• jnlpba
• ncbi_disease

Installation

pip install -r requirements.txt