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BioBert #1

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kellyquek opened this issue Sep 5, 2020 · 1 comment
Open

BioBert #1

kellyquek opened this issue Sep 5, 2020 · 1 comment

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@kellyquek
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Just to check. Would it be possible to use BioBert directly to obtain the 4 entities type - gene, drug, disease, species? The labels i obtained now are B-MISC etc..
@marcelbra
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Depends on what you mean with „directly“. You definitely need to fine-tune, as BioBert pre-trained is basically just a language model. If you do finetune, then yes, that’s possibly. But you need a dataset annotated with these 4 tags and need to change the tags list and tag_map in pred_ner.py accordingly.

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@kellyquek @marcelbra