CubNER: Columbia Unsupervised Biomedical Named Entity Recognizer

This NER tool is described in the paper: Shaodian Zhang and Noémie Elhadad, Unsupervised Biomedical Named Entity Recognition: Experiments with Clinical and Biological Texts, JBI [link]

Features:

  • Could be used in various biomedical NER tasks. The tool is domain independent.
  • No training data needed. No rules needed. Need UMLS metathesaurus
  • See README for more details

Java implemention with souce code: [version 1.2] [README]