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Feature Description
Name BiomedNLP-PubMedBERT-ProteinStructure-NER-2.1_onnx
Default Pipeline transformer, ner
Components transformer, ner
Vectors 0 keys, 0 unique vectors (0 dimensions)
Sources n/a
License n/a
Author Melanie Vollmar

Label Scheme

View label scheme (20 labels for 1 components)
Component Labels
ner "bond_interaction", "chemical", "complex_assembly", "evidence", "experimental_method", "gene", "mutant", "oligomeric_state", "protein", "protein_state", "protein_type", "ptm", "residue_name", "residue_name_number", "residue_number", "residue_range", "site", "species", "structure_element", "taxonomy_domain"

Scores for entity types

entity type precision recall F1 sample number
"bond_interaction" 0.94 0.92 0.93 41
"chemical" 0.86 0.92 0.89 589
"complex_assembly" 0.85 0.89 0.87 185
"evidence" 0.83 0.89 0.86 392
"experimental_method" 0.86 0.85 0.86 310
"gene" 0.73 0.86 0.79 26
"mutant" 0.88 0.94 0.91 216
"oligomeric_state" 0.92 0.96 0.94 116
"protein" 0.91 0.95 0.93 755
"protein_state" 0.78 0.88 0.82 577
"protein_type" 0.87 0.85 0.86 265
"ptm" 0.67 0.69 0.68 33
"residue_name" 0.88 0.95 0.91 76
"residue_name_number" 0.94 0.96 0.95 262
"residue_number" 0.62 0.88 0.73 45
"residue_range" 0.87 0.79 0.83 31
"site" 0.88 0.90 0.89 245
"species" 0.95 0.97 0.96 76
"structure_element" 0.90 0.93 0.92 751
"taxonomy_domain" 0.99 0.99 0.99 83
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Evaluation results