Description
This pretrained pipeline is built on the top of ner_deid_enriched_biobert model.
Predicted Entities
AGE, BIOID, CITY, COUNTRY, DATE, DEVICE, DOCTOR, EMAIL, FAX, HEALTHPLAN, HOSPITAL, IDNUM, LOCATION-OTHER, MEDICALRECORD, ORGANIZATION, PATIENT, PHONE, PROFESSION, STATE, STREET, URL, USERNAME, ZIP
How to use
from sparknlp.pretrained import PretrainedPipeline
pipeline = PretrainedPipeline("ner_deid_enriched_biobert_pipeline", "en", "clinical/models")
text = '''A. Record date : 2093-01-13, David Hale, M.D. Name : Hendrickson, Ora MR. # 7194334. PCP : Oliveira, non-smoking. Cocke County Baptist Hospital. 0295 Keats Street. Phone +1 (302) 786-5227. Patient's complaints first surfaced when he started working for Brothers Coal-Mine.'''
result = pipeline.fullAnnotate(text)
import com.johnsnowlabs.nlp.pretrained.PretrainedPipeline
val pipeline = new PretrainedPipeline("ner_deid_enriched_biobert_pipeline", "en", "clinical/models")
val text = "A. Record date : 2093-01-13, David Hale, M.D. Name : Hendrickson, Ora MR. # 7194334. PCP : Oliveira, non-smoking. Cocke County Baptist Hospital. 0295 Keats Street. Phone +1 (302) 786-5227. Patient's complaints first surfaced when he started working for Brothers Coal-Mine."
val result = pipeline.fullAnnotate(text)
import nlu
nlu.load("en.deid.ner_enriched_biobert.pipeline").predict("""A. Record date : 2093-01-13, David Hale, M.D. Name : Hendrickson, Ora MR. # 7194334. PCP : Oliveira, non-smoking. Cocke County Baptist Hospital. 0295 Keats Street. Phone +1 (302) 786-5227. Patient's complaints first surfaced when he started working for Brothers Coal-Mine.""")
Results
| | ner_chunk | begin | end | ner_label | confidence |
|---:|:------------------------------|--------:|------:|:-------------|-------------:|
| 0 | 2093-01-13 | 17 | 26 | DATE | 0.9267 |
| 1 | David Hale | 29 | 38 | DOCTOR | 0.7949 |
| 2 | Hendrickson, Ora | 53 | 68 | PATIENT | 0.637733 |
| 3 | 7194334 | 76 | 82 | PHONE | 0.4939 |
| 4 | Cocke County Baptist Hospital | 114 | 142 | HOSPITAL | 0.6199 |
| 5 | 0295 Keats Street | 145 | 161 | STREET | 0.592433 |
| 6 | 302) 786-5227 | 174 | 186 | PHONE | 0.846833 |
| 7 | Brothers Coal-Mine | 253 | 270 | ORGANIZATION | 0.45085 |
Model Information
| Model Name: | ner_deid_enriched_biobert_pipeline |
| Type: | pipeline |
| Compatibility: | Healthcare NLP 4.3.0+ |
| License: | Licensed |
| Edition: | Official |
| Language: | en |
| Size: | 422.2 MB |
Included Models
- DocumentAssembler
- SentenceDetectorDLModel
- TokenizerModel
- BertEmbeddings
- MedicalNerModel
- NerConverterInternalModel