Confusion about the differences between BERN & BERN2.

Question

Confusion about the differences between BERN & BERN2.

sschet opened this issue 2 years ago · comments

Hi, I believe the difference between BERN & BERN2 is that BERN uses ST-NER BioBERT whereas BERN2 uses MT-NER BioLM. Is this correct? My confusion stems from the BioBERT GitHub (link) where it says BERN uses BioBERT and BERN2 uses BioBERT + BioLM. Any clarification on this would be greatly appreciated. Thanks and I look forward to hearing from you.

Jinhyuk Lee · Answer 1 · Tue May 17 2022 17:27:01 GMT+0800 (China Standard Time)

Hi @sschet, you are correct. The readme was written a while ago when BERN2 was using BioBERT-based named entity normalization (NEN). Currently BERN2 uses Bio-LM for NER and PubMedBERT for NEN.