Description
This pretrained pipeline is built on the top of ner_clinical_trials_abstracts model.
How to use
from sparknlp.pretrained import PretrainedPipeline
pipeline = PretrainedPipeline("ner_clinical_trials_abstracts_pipeline", "en", "clinical/models")
text = '''A one-year, randomised, multicentre trial comparing insulin glargine with NPH insulin in combination with oral agents in patients with type 2 diabetes. In a multicentre, open, randomised study, 570 patients with Type 2 diabetes, aged 34 - 80 years, were treated for 52 weeks with insulin glargine or NPH insulin given once daily at bedtime.'''
result = pipeline.fullAnnotate(text)
import com.johnsnowlabs.nlp.pretrained.PretrainedPipeline
val pipeline = new PretrainedPipeline("ner_clinical_trials_abstracts_pipeline", "en", "clinical/models")
val text = "A one-year, randomised, multicentre trial comparing insulin glargine with NPH insulin in combination with oral agents in patients with type 2 diabetes. In a multicentre, open, randomised study, 570 patients with Type 2 diabetes, aged 34 - 80 years, were treated for 52 weeks with insulin glargine or NPH insulin given once daily at bedtime."
val result = pipeline.fullAnnotate(text)
import nlu
nlu.load("en.med_ner.clinical_trials_abstracts.pipe").predict("""A one-year, randomised, multicentre trial comparing insulin glargine with NPH insulin in combination with oral agents in patients with type 2 diabetes. In a multicentre, open, randomised study, 570 patients with Type 2 diabetes, aged 34 - 80 years, were treated for 52 weeks with insulin glargine or NPH insulin given once daily at bedtime.""")
Results
| | ner_chunks | begin | end | ner_label | confidence |
|---:|:-----------------|--------:|------:|:-------------------|-------------:|
| 0 | randomised | 12 | 21 | CTDesign | 0.9996 |
| 1 | multicentre | 24 | 34 | CTDesign | 0.9998 |
| 2 | insulin glargine | 52 | 67 | Drug | 0.99135 |
| 3 | NPH insulin | 74 | 84 | Drug | 0.9687 |
| 4 | type 2 diabetes | 135 | 149 | DisorderOrSyndrome | 0.999933 |
| 5 | multicentre | 157 | 167 | CTDesign | 0.9997 |
| 6 | open | 170 | 173 | CTDesign | 0.9988 |
| 7 | randomised | 176 | 185 | CTDesign | 0.9984 |
| 8 | 570 | 194 | 196 | NumberPatients | 0.9906 |
| 9 | Type 2 diabetes | 212 | 226 | DisorderOrSyndrome | 0.9999 |
| 10 | 34 | 234 | 235 | Age | 0.9999 |
| 11 | 80 | 239 | 240 | Age | 0.9931 |
| 12 | 52 weeks | 266 | 273 | Duration | 0.9794 |
| 13 | insulin glargine | 280 | 295 | Drug | 0.989 |
| 14 | NPH insulin | 300 | 310 | Drug | 0.97955 |
| 15 | once daily | 318 | 327 | DrugTime | 0.999 |
| 16 | bedtime | 332 | 338 | DrugTime | 0.9937 |
Model Information
| Model Name: | ner_clinical_trials_abstracts_pipeline |
| Type: | pipeline |
| Compatibility: | Healthcare NLP 4.3.0+ |
| License: | Licensed |
| Edition: | Official |
| Language: | en |
| Size: | 1.7 GB |
Included Models
- DocumentAssembler
- SentenceDetectorDLModel
- TokenizerModel
- WordEmbeddingsModel
- MedicalNerModel
- NerConverterInternalModel