SpanMarker with bert-base-uncased on SourceData

This is a SpanMarker model trained on the SourceData dataset that can be used for Named Entity Recognition. This SpanMarker model uses bert-base-uncased as the underlying encoder.

Model Details

Model Description

• Model Type: SpanMarker
• Encoder: bert-base-uncased
• Maximum Sequence Length: 256 tokens
• Maximum Entity Length: 8 words
• Training Dataset: SourceData
• Language: en
• License: cc-by-4.0

Model Sources

• Repository: SpanMarker on GitHub
• Thesis: SpanMarker For Named Entity Recognition

Model Labels

Evaluation

Metrics

Uses

Direct Use for Inference

from span_marker import SpanMarkerModel

# Download from the 🤗 Hub
model = SpanMarkerModel.from_pretrained("tomaarsen/span-marker-bert-base-uncased-sourcedata")
# Run inference
entities = model.predict("Comparison of ENCC-derived neurospheres treated with intestinal extract from hypoganglionosis rats, hypoganglionosis treated with Fecal microbiota transplantation (FMT) sham rat. Comparison of neuronal markers. (J) Immunofluorescence stain number of PGP9.5+. Nuclei were stained blue with DAPI; Triangles indicate PGP9.5+.")

Downstream Use

You can finetune this model on your own dataset.

<details><summary>Click to expand</summary>

from span_marker import SpanMarkerModel, Trainer

# Download from the 🤗 Hub
model = SpanMarkerModel.from_pretrained("tomaarsen/span-marker-bert-base-uncased-sourcedata")

# Specify a Dataset with "tokens" and "ner_tag" columns
dataset = load_dataset("conll2003") # For example CoNLL2003

# Initialize a Trainer using the pretrained model & dataset
trainer = Trainer(
    model=model,
    train_dataset=dataset["train"],
    eval_dataset=dataset["validation"],
)
trainer.train()
trainer.save_model("tomaarsen/span-marker-bert-base-uncased-sourcedata-finetuned")

</details>

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Training Details

Training Set Metrics

Training Hyperparameters

• learning_rate: 5e-05
• train_batch_size: 32
• eval_batch_size: 32
• seed: 42
• optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08
• lr_scheduler_type: linear
• lr_scheduler_warmup_ratio: 0.1
• num_epochs: 3

Training Results

Framework Versions

• Python: 3.9.16
• SpanMarker: 1.3.1.dev
• Transformers: 4.33.0
• PyTorch: 2.0.1+cu118
• Datasets: 2.14.0
• Tokenizers: 0.13.2

Citation

BibTeX

@software{Aarsen_SpanMarker,
    author = {Aarsen, Tom},
    license = {Apache-2.0},
    title = {{SpanMarker for Named Entity Recognition}},
    url = {https://github.com/tomaarsen/SpanMarkerNER}
}

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