performance_report.md · Glasgow-AI4BioMed/bioner_medmentions

Label	Precision	Recall	F1-score	Support
Anatomy	0.870	0.872	0.871	11509
Chemicals & Drugs	0.902	0.889	0.895	22432
Concepts & Ideas	0.790	0.630	0.701	10273
Devices	0.805	0.791	0.798	1170
Disorders	0.847	0.817	0.832	24634
Genes & Molecular Sequences	0.809	0.851	0.829	3382
Geographic Areas	0.876	0.907	0.892	1712
Living Beings	0.888	0.888	0.888	11388
Objects	0.806	0.886	0.844	851
Occupations	0.576	0.709	0.636	522
Organizations	0.797	0.885	0.839	1308
Phenomena	0.448	0.469	0.458	1131
Physiology	0.784	0.789	0.787	11726
Procedures	0.773	0.801	0.787	20145
macro avg	0.784	0.799	0.790	122183
weighted avg	0.833	0.820	0.826	122183

Label	Precision	Recall	F1-score	Support
O	0.972	0.976	0.974	557052
B-Anatomy	0.919	0.913	0.916	11456
I-Anatomy	0.917	0.945	0.931	9946
B-Chemicals & Drugs	0.943	0.934	0.938	22294
I-Chemicals & Drugs	0.963	0.955	0.959	31036
B-Concepts & Ideas	0.877	0.652	0.748	10226
I-Concepts & Ideas	0.884	0.856	0.869	8750
B-Devices	0.868	0.801	0.833	1163
I-Devices	0.850	0.886	0.868	1602
B-Disorders	0.900	0.850	0.875	24455
I-Disorders	0.897	0.907	0.902	22954
B-Genes & Molecular Sequences	0.868	0.905	0.886	3373
I-Genes & Molecular Sequences	0.891	0.935	0.913	5266
B-Geographic Areas	0.917	0.950	0.933	1702
I-Geographic Areas	0.937	0.934	0.936	1370
B-Living Beings	0.925	0.935	0.930	11285
I-Living Beings	0.958	0.963	0.960	12389
B-Objects	0.857	0.956	0.903	832
I-Objects	0.904	0.936	0.920	705
B-Occupations	0.649	0.759	0.699	518
I-Occupations	0.600	0.756	0.669	393
B-Organizations	0.837	0.916	0.874	1296
I-Organizations	0.857	0.958	0.904	1766
B-Phenomena	0.541	0.513	0.527	1124
I-Phenomena	0.582	0.486	0.530	989
B-Physiology	0.849	0.819	0.834	11666
I-Physiology	0.810	0.881	0.844	8875
B-Procedures	0.829	0.844	0.837	20022
I-Procedures	0.891	0.896	0.893	20889
macro avg	0.851	0.863	0.855	805394
weighted avg	0.949	0.949	0.949	805394

Label	Precision	Recall	F1-score	Support
Anatomy	0.682	0.697	0.690	3881
Chemicals & Drugs	0.751	0.757	0.754	7490
Concepts & Ideas	0.487	0.339	0.400	3365
Devices	0.606	0.436	0.507	493
Disorders	0.700	0.646	0.672	8320
Genes & Molecular Sequences	0.546	0.580	0.563	965
Geographic Areas	0.747	0.760	0.753	678
Living Beings	0.716	0.724	0.720	4228
Objects	0.552	0.656	0.600	259
Occupations	0.466	0.480	0.473	198
Organizations	0.502	0.578	0.537	453
Phenomena	0.277	0.321	0.297	274
Physiology	0.559	0.566	0.562	3751
Procedures	0.588	0.600	0.594	6509
macro avg	0.584	0.582	0.580	40864
weighted avg	0.650	0.633	0.640	40864

Label	Precision	Recall	F1-score	Support
O	0.931	0.947	0.939	187057
B-Anatomy	0.761	0.754	0.757	3862
I-Anatomy	0.720	0.775	0.747	3271
B-Chemicals & Drugs	0.821	0.823	0.822	7409
I-Chemicals & Drugs	0.856	0.847	0.851	10003
B-Concepts & Ideas	0.590	0.360	0.447	3342
I-Concepts & Ideas	0.556	0.459	0.503	2857
B-Devices	0.696	0.443	0.542	492
I-Devices	0.628	0.554	0.588	688
B-Disorders	0.770	0.688	0.727	8238
I-Disorders	0.729	0.711	0.720	7334
B-Genes & Molecular Sequences	0.643	0.656	0.649	957
I-Genes & Molecular Sequences	0.677	0.710	0.693	1529
B-Geographic Areas	0.793	0.809	0.801	674
I-Geographic Areas	0.746	0.768	0.756	542
B-Living Beings	0.795	0.801	0.798	4185
I-Living Beings	0.844	0.820	0.832	4850
B-Objects	0.610	0.715	0.658	256
I-Objects	0.675	0.672	0.674	244
B-Occupations	0.521	0.508	0.514	197
I-Occupations	0.474	0.364	0.412	173
B-Organizations	0.579	0.650	0.613	443
I-Organizations	0.640	0.711	0.673	622
B-Phenomena	0.341	0.343	0.342	274
I-Phenomena	0.285	0.321	0.302	212
B-Physiology	0.640	0.604	0.621	3726
I-Physiology	0.549	0.574	0.561	2688
B-Procedures	0.661	0.651	0.656	6454
I-Procedures	0.679	0.662	0.671	6567
macro avg	0.662	0.645	0.651	269146
weighted avg	0.869	0.873	0.870	269146

Label	Precision	Recall	F1-score	Support
Anatomy	0.656	0.672	0.664	3277
Chemicals & Drugs	0.748	0.745	0.747	7398
Concepts & Ideas	0.515	0.370	0.430	3683
Devices	0.447	0.372	0.406	355
Disorders	0.691	0.641	0.665	8109
Genes & Molecular Sequences	0.506	0.567	0.535	1115
Geographic Areas	0.671	0.737	0.703	598
Living Beings	0.718	0.739	0.728	3994
Objects	0.518	0.598	0.555	336
Occupations	0.367	0.480	0.416	196
Organizations	0.504	0.634	0.561	382
Phenomena	0.206	0.271	0.234	269
Physiology	0.560	0.582	0.571	3833
Procedures	0.597	0.607	0.602	6599
macro avg	0.550	0.573	0.558	40144
weighted avg	0.641	0.630	0.634	40144

Label	Precision	Recall	F1-score	Support
O	0.933	0.945	0.939	188640
B-Anatomy	0.733	0.725	0.729	3258
I-Anatomy	0.715	0.766	0.740	3035
B-Chemicals & Drugs	0.814	0.803	0.808	7363
I-Chemicals & Drugs	0.825	0.843	0.834	9659
B-Concepts & Ideas	0.625	0.382	0.474	3661
I-Concepts & Ideas	0.562	0.511	0.535	3083
B-Devices	0.583	0.367	0.451	354
I-Devices	0.465	0.451	0.458	566
B-Disorders	0.765	0.681	0.721	8047
I-Disorders	0.738	0.703	0.720	7601
B-Genes & Molecular Sequences	0.608	0.665	0.635	1111
I-Genes & Molecular Sequences	0.607	0.656	0.631	1694
B-Geographic Areas	0.729	0.810	0.767	594
I-Geographic Areas	0.720	0.684	0.702	557
B-Living Beings	0.787	0.801	0.794	3984
I-Living Beings	0.837	0.815	0.826	4514
B-Objects	0.589	0.645	0.615	335
I-Objects	0.698	0.642	0.669	299
B-Occupations	0.444	0.549	0.491	195
I-Occupations	0.379	0.508	0.434	130
B-Organizations	0.551	0.675	0.607	382
I-Organizations	0.595	0.802	0.683	511
B-Phenomena	0.292	0.321	0.306	265
I-Phenomena	0.272	0.340	0.302	209
B-Physiology	0.642	0.614	0.628	3814
I-Physiology	0.552	0.625	0.586	2805
B-Procedures	0.675	0.657	0.666	6558
I-Procedures	0.707	0.669	0.687	6928
macro avg	0.636	0.643	0.636	270152
weighted avg	0.869	0.871	0.869	270152

Glasgow-AI4BioMed
/

bioner_medmentions_st21pv