200+ State of the Art Medical Models for NER, Entity Resolution, Relation Extraction, Assertion, Spark 3 and Python 3.8 support - John Snow Labs NLU 3.0.0
200+ State of the Art Medical Models for NER, Entity Resolution, Relation Extraction, Assertion, Spark 3 and Python 3.8 support in NLU 3.0 Release and much more
We are incredibly excited to announce the release of NLU 3.0.0 which makes most of John Snow Labs medical healthcare model available in just 1 line of code in NLU.
These models are the most accurate in their domains and highly scalable in Spark clusters.
In addition, Spark 3.0.X and Spark 3.1.X is now supported, together with Python3.8
This is enabled by the amazing Spark NLP3.0.1 and Spark NLP for Healthcare 3.0.1 releases.
New Features
- Over 200 new models for the
healthcaredomain - 6 new classes of models, Assertion, Sentence/Chunk Resolvers, Relation Extractors, Medical NER models, De-Identificator Models
- Spark 3.0.X and 3.1.X support
- Python 3.8 Support
- New Output level
relation - 1 Line to install NLU just run
!wget https://raw.githubusercontent.com/JohnSnowLabs/nlu/master/scripts/colab_setup.sh -O - | bash - Various new EMR and Databricks versions supported
- GPU Mode, more then 600% speedup by enabling GPU mode.
- Authorized mode for licensed features
New Documentation
New Notebooks
- Medical Named Entity Extraction (NER) notebook
- Relation extraction notebook
- Entity Resolution overview notebook
- Assertion overview notebook
- De-Identification overview notebook
- Graph NLU tutorial
AssertionDLModels
| Language | nlu.load() reference | Spark NLP Model reference |
|---|---|---|
| English | assert | assertion_dl |
| English | assert.biobert | assertion_dl_biobert |
| English | assert.healthcare | assertion_dl_healthcare |
| English | assert.large | assertion_dl_large |
New Word Embeddings
| Language | nlu.load() reference | Spark NLP Model reference |
|---|---|---|
| English | embed.glove.clinical | embeddings_clinical |
| English | embed.glove.biovec | embeddings_biovec |
| English | embed.glove.healthcare | embeddings_healthcare |
| English | embed.glove.healthcare_100d | embeddings_healthcare_100d |
| English | en.embed.glove.icdoem | embeddings_icdoem |
| English | en.embed.glove.icdoem_2ng | embeddings_icdoem_2ng |
Sentence Entity resolvers
RelationExtractionModel
| Language | nlu.load() reference | Spark NLP Model reference |
|---|---|---|
| English | relation.posology | posology_re |
| English | relation | redl_bodypart_direction_biobert |
| English | relation.bodypart.direction | redl_bodypart_direction_biobert |
| English | relation.bodypart.problem | redl_bodypart_problem_biobert |
| English | relation.bodypart.procedure | redl_bodypart_procedure_test_biobert |
| English | relation.chemprot | redl_chemprot_biobert |
| English | relation.clinical | redl_clinical_biobert |
| English | relation.date | redl_date_clinical_biobert |
| English | relation.drug_drug_interaction | redl_drug_drug_interaction_biobert |
| English | relation.humen_phenotype_gene | redl_human_phenotype_gene_biobert |
| English | relation.temporal_events | redl_temporal_events_biobert |
NERDLModels
De-Identification Models
| Language | nlu.load() reference | Spark NLP Model reference |
|---|---|---|
| English | med_ner.deid.augmented | ner_deid_augmented |
| English | med_ner.deid.biobert | ner_deid_biobert |
| English | med_ner.deid.enriched | ner_deid_enriched |
| English | med_ner.deid.enriched_biobert | ner_deid_enriched_biobert |
| English | med_ner.deid.large | ner_deid_large |
| English | med_ner.deid.sd | ner_deid_sd |
| English | med_ner.deid.sd_large | ner_deid_sd_large |
| English | med_ner.deid | nerdl_deid |
| English | med_ner.deid.synthetic | ner_deid_synthetic |
| English | med_ner.deid.dl | ner_deidentify_dl |
| English | en.de_identify | deidentify_rb |
| English | de_identify.rules | deid_rules |
| English | de_identify.clinical | deidentify_enriched_clinical |
| English | de_identify.large | deidentify_large |
| English | de_identify.rb | deidentify_rb |
| English | de_identify.rb_no_regex | deidentify_rb_no_regex |
Chunk resolvers
New Classifiers
| Language | nlu.load() reference | Spark NLP Model reference |
|---|---|---|
| English | classify.icd10.clinical | classifier_icd10cm_hcc_clinical |
| English | classify.icd10.healthcare | classifier_icd10cm_hcc_healthcare |
| English | classify.ade.biobert | classifierdl_ade_biobert |
| English | classify.ade.clinical | classifierdl_ade_clinicalbert |
| English | classify.ade.conversational | classifierdl_ade_conversational_biobert |
| English | classify.gender.biobert | classifierdl_gender_biobert |
| English | classify.gender.sbert | classifierdl_gender_sbert |
| English | classify.pico | classifierdl_pico_biobert |
German Medical models
| nlu.load() reference | Spark NLP Model reference |
|---|---|
| [embed] | w2v_cc_300d |
| [embed.w2v] | w2v_cc_300d |
| [resolve_chunk] | chunkresolve_ICD10GM |
| [resolve_chunk.icd10gm] | chunkresolve_ICD10GM |
| resolve_chunk.icd10gm.2021 | chunkresolve_ICD10GM_2021 |
| med_ner.legal | ner_legal |
| med_ner | ner_healthcare |
| med_ner.healthcare | ner_healthcare |
| med_ner.healthcare_slim | ner_healthcare_slim |
| med_ner.traffic | ner_traffic |
Spanish Medical models
GPU Mode
You can now enable NLU GPU mode by setting gpu=true while loading a model. I.e. nlu.load('train.sentiment' gpu=True) . If must resart you kernel, if you already loaded a nlu pipeline withouth GPU mode.
Output Level Relation
This new output level is used for relation extractors and will give you 1 row per relation extracted.
Bug fixes
- Fixed a bug that caused loading NLU models in offline mode not to work in some occasions
1 line Install NLU
!wget https://raw.githubusercontent.com/JohnSnowLabs/nlu/master/scripts/colab_setup.sh -O - | bash
Install via PIP
! pip install nlu pyspark==3.0.1