long document classification with language models
:book: BERT Long Document Classification :book:
an easy-to-use interface to fully trained BERT based models for multi-class and multi-label long document classification.
pre-trained models are currently available for two clinical note (EHR) phenotyping tasks: smoker identification and obesity detection.
To sustain future development and improvements, we interface pytorch-transformers for all language model components of our architectures. Additionally, their is a blog post describing the architecture.
|Model||Dataset||# Labels||Evaluation F1|
|n2c2_2006_smoker_lstm||I2B2 2006: Smoker Identification||4||0.981|
|n2c2_2008_obesity_lstm||I2B2 2008: Obesity and Co-morbidities Identification||15||0.997|
Install with pip:
pip install bert_document_classification
pip install git+https://github.com/AndriyMulyar/bert_document_classification
Maps text documents of arbitrary length to binary vectors indicating labels.
from bert_document_classification.models import SmokerPhenotypingBert from bert_document_classification.models import ObesityPhenotypingBert smoking_classifier = SmokerPhenotypingBert(device='cuda', batch_size=10) #defaults to GPU prediction obesity_classifier = ObesityPhenotypingBert(device='cpu', batch_size=10) #or CPU if you would like. smoking_classifier.predict(["I'm a document! Make me long and the model can still perform well!"])
- For training you will need a GPU.
- For bulk inference where speed is not of concern lots of available memory and CPU cores will likely work.
- Model downloads are cached in
~/.cache/torch/bert_document_classification/. Try clearing this folder if you have issues.
If you found this project useful, consider citing our extended abstract accepted at NeurIPS 2019 ML4Health .
Format bibtex citation
Implementation, development and training in this project were supported by funding from the Mark Dredze Lab at Johns Hopkins University.
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
|Filename, size||File type||Python version||Upload date||Hashes|
|Filename, size bert_document_classification-1.0.0-py3-none-any.whl (18.7 kB)||File type Wheel||Python version py3||Upload date||Hashes View hashes|
|Filename, size bert_document_classification-1.0.0.tar.gz (16.3 kB)||File type Source||Python version None||Upload date||Hashes View hashes|
Hashes for bert_document_classification-1.0.0-py3-none-any.whl
Hashes for bert_document_classification-1.0.0.tar.gz