PDBEurope/BiomedNLP-PubMedBERT-ProteinStructure-NER-v2.1_onnx

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