PubMedBERT_BioNLP13CG_NER

judithrosell/PubMedBERT_BioNLP13CG_NER

PubMedBERT_BioNLP13CG_NER is a token classification model from judithrosell. Use it when you need labels on individual words, such as names. It is set up for transformers. The card lists the license as mit.

should probably proofread and complete it, then remove this comment. --

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At a glance

Task: Token Classification
Library: transformers
License: mit
Model type: bert
Access: Public
Created: Dec 23, 2023
Updated: Dec 23, 2023
SHA: be3b97e3

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Base models

Model card

From the Hugging Face model README

PubMedBERT_BioNLP13CG_NER

This model is a fine-tuned version of microsoft/BiomedNLP-PubMedBERT-base-uncased-abstract-fulltext on the None dataset. It achieves the following results on the evaluation set:

Loss: 0.2094
Precision: 0.8591
Recall: 0.8404
F1: 0.8497
Accuracy: 0.9510

Model description

More information needed

Intended uses & limitations

More information needed

Training and evaluation data

More information needed

Training procedure

Training hyperparameters

The following hyperparameters were used during training:

learning_rate: 2e-05
train_batch_size: 16
eval_batch_size: 16
seed: 42
gradient_accumulation_steps: 2
total_train_batch_size: 32
optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08
lr_scheduler_type: linear
num_epochs: 3

Training results

Training Loss	Epoch	Step	Validation Loss	Precision	Recall	F1	Accuracy
No log	0.99	95	0.3540	0.7748	0.7481	0.7612	0.9170
No log	2.0	191	0.2264	0.8430	0.8356	0.8393	0.9467
No log	2.98	285	0.2094	0.8591	0.8404	0.8497	0.9510

Framework versions

Transformers 4.35.2
Pytorch 2.1.0+cu121
Datasets 2.16.0
Tokenizers 0.15.0

Task: Token Classification
Library: transformers
Type: bert
License: mit
Created: Dec 23, 2023
Updated: Dec 23, 2023