Models hub internal (#390)

* 2023-03-29-icd10cm_resolver_pipeline_en (#44)

* Add model 2023-03-29-icd10cm_resolver_pipeline_en

* Add model 2023-03-29-icd10cm_resolver_pipeline_en

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Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* 2023-03-29-oncology_general_pipeline_en (#46)

* Add model 2023-03-29-oncology_general_pipeline_en

* Add model 2023-03-29-oncology_diagnosis_pipeline_en

* Add model 2023-03-29-oncology_biomarker_pipeline_en

* Add model 2023-03-29-icd10_icd9_mapping_en

* Add model 2023-03-29-icd10cm_snomed_mapping_en

* Add model 2023-03-29-icd10cm_umls_mapping_en

* Add model 2023-03-29-icd9_resolver_pipeline_en

* Add model 2023-03-29-icdo_snomed_mapping_en

* Add model 2023-03-29-mesh_umls_mapping_en

* Add model 2023-03-29-rxnorm_ndc_mapping_en

* Add model 2023-03-29-rxnorm_umls_mapping_en

* Add model 2023-03-29-snomed_icd10cm_mapping_en

* Add model 2023-03-29-snomed_icd10cm_mapping_en

* Add model 2023-03-29-snomed_icdo_mapping_en

* Add model 2023-03-29-oncology_therapy_pipeline_en

* Add model 2023-03-29-snomed_umls_mapping_en

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Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-03-29-icd10cm_resolver_pipeline_en (#45)

* Add model 2023-03-29-icd10cm_resolver_pipeline_en

* Add model 2023-03-29-umls_drug_resolver_pipeline_en

---------

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* Add model 2023-03-30-text_generator_biomedical_biogpt_en (#48)

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-03-30-summarizer_generic_jsl_en (#49)

* Add model 2023-03-30-summarizer_generic_jsl_en

* Update 2023-03-30-summarizer_generic_jsl_en.md

---------

Co-authored-by: Cabir40 <cabir4006@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>

* Add model 2023-03-30-summarizer_clinical_jsl_augmented_en (#51)

* Update 2023-03-30-summarizer_generic_jsl_en.md

* Update 2023-03-30-text_generator_biomedical_biogpt_en.md

* Update 2023-03-30-summarizer_clinical_jsl_augmented_en.md

* 2023-04-02-ner_jsl_limited_80p_for_benchmarks_en (#58)

* Add model 2023-04-02-ner_jsl_limited_80p_for_benchmarks_en

* Update 2023-04-02-ner_jsl_limited_80p_for_benchmarks_en.md

* Update 2023-04-02-ner_jsl_limited_80p_for_benchmarks_en.md

---------

Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>
Co-authored-by: Veysel Kocaman <vkocaman@gmail.com>

* 2023-03-30-ner_vop_wip_en (#52)

* Add model 2023-03-30-ner_vop_wip_en

* Update 2023-03-30-ner_vop_wip_en.md

---------

Co-authored-by: mauro-nievoff <mauro.nievasoffidani@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>

* 2023-03-30-umls_clinical_findings_resolver_pipeline_en (#47)

* Add model 2023-03-30-umls_clinical_findings_resolver_pipeline_en

* Add model 2023-03-30-cvx_resolver_pipeline_en

* Add model 2023-03-30-umls_disease_syndrome_resolver_pipeline_en

* Add model 2023-03-30-umls_major_concepts_resolver_pipeline_en

* Add model 2023-03-30-umls_drug_substance_resolver_pipeline_en

* Add model 2023-03-31-medication_resolver_pipeline_en

* Add model 2023-03-31-medication_resolver_transform_pipeline_en

* Add model 2023-03-31-spellcheck_clinical_pipeline_en

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Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* Add model 2023-04-03-ner_oncology_limited_80p_for_benchmarks_en (#61)

* 2023-04-03-text_generator_biomedical_biogpt_base_en (#60)

* Delete 2023-03-30-text_generator_biomedical_biogpt_en.md

* Update 2023-04-03-text_generator_generic_flan_base_en.md

* Update 2023-03-30-summarizer_clinical_jsl_augmented_en.md

* Update 2023-03-30-summarizer_generic_jsl_en.md

* Add model 2023-04-04-text_generator_generic_flan_t5_large_en (#64)

* 2023-04-07-embeddings_clinical_medium_en (#75)

* Add model 2023-04-07-embeddings_clinical_medium_en

* Update 2023-04-07-embeddings_clinical_medium_en.md

---------

Co-authored-by: Cabir40 <cabir4006@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>

* Add model 2023-04-07-embeddings_clinical_large_en (#79)

* 2023-04-10-genericclassifier_sdoh_mental_health_embeddings_clinical_en (#81)

* Add model 2023-04-10-genericclassifier_sdoh_mental_health_embeddings_clinical_en

* Add model 2023-04-10-genericclassifier_sdoh_under_treatment_sbiobert_cased_mli_en

* Add model 2023-04-10-genericclassifier_sdoh_housing_insecurity_sbiobert_cased_mli_en

* added missing md files

* Add model 2023-04-10-genericclassifier_sdoh_mental_health_clinical_en

* Delete 2023-04-10-genericclassifier_sdoh_mental_health_embeddings_clinical_en.md

* Update 2023-04-10-genericclassifier_sdoh_under_treatment_sbiobert_cased_mli_en.md

* Update 2023-04-10-genericclassifier_sdoh_mental_health_clinical_en.md

* Update 2023-04-10-genericclassifier_sdoh_housing_insecurity_sbiobert_cased_mli_en.md

* Update 2023-04-10-genericclassifier_sdoh_under_treatment_sbiobert_cased_mli_en.md

* Update 2023-04-10-genericclassifier_sdoh_mental_health_clinical_en.md

---------

Co-authored-by: hsaglamlar <hsaglamlar@gmail.com>
Co-authored-by: Cabir ÇELİK <ogr.cabir.celik@ahievran.edu.tr>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>

* 2023-04-10-medication_resolver_pipeline_en (#83)

* Add model 2023-04-10-medication_resolver_pipeline_en

* Add model 2023-04-11-medication_resolver_transform_pipeline_en

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Co-authored-by: SKocer <samedkocer22@gmail.com>

* 2023-04-11-umls_clinical_findings_resolver_pipeline_en (#89)

* Add model 2023-04-11-umls_clinical_findings_resolver_pipeline_en

* Add model 2023-04-11-umls_drug_substance_resolver_pipeline_en

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Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-04-12-ner_vop_emb_clinical_large_wip_en (#100)

* Add model 2023-04-12-ner_vop_emb_clinical_large_wip_en

* Add model 2023-04-12-ner_vop_emb_clinical_medium_wip_en

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Co-authored-by: mauro-nievoff <mauro.nievasoffidani@gmail.com>

* Add model 2023-04-12-biogpt_chat_jsl_en (#103)

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-04-12-ner_oncology_emb_clinical_large_en (#101)

* Add model 2023-04-12-ner_oncology_emb_clinical_large_en

* Add model 2023-04-12-ner_oncology_emb_clinical_medium_en

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Co-authored-by: Meryem1425 <vildansarikaya25@gmail.com>

* 2023-04-12-ner_posology_emb_clinical_large_en (#99)

* Add model 2023-04-12-ner_posology_emb_clinical_large_en

* Update 2023-04-12-ner_posology_emb_clinical_large_en.md

Fixed the given sample text

* Add model 2023-04-12-ner_posology_emb_clinical_medium_en

* Update 2023-04-12-ner_posology_emb_clinical_medium_en.md

Corrected thr code block view

* Add model 2023-04-12-ner_deid_large_emb_clinical_large_en

* Update 2023-04-12-ner_deid_large_emb_clinical_large_en.md

Corrected the code block view

* Add model 2023-04-12-ner_deid_large_emb_clinical_medium_en

* Update 2023-04-12-ner_deid_large_emb_clinical_medium_en.md

corrected the python code block view

* Update 2023-04-12-ner_posology_emb_clinical_medium_en.md

Fixed scala code

* Update 2023-04-12-ner_posology_emb_clinical_large_en.md

Fixed scala code

---------

Co-authored-by: gokhanturer <mgturer@gmail.com>
Co-authored-by: Gökhan <81560784+gokhanturer@users.noreply.github.com>

* 2023-04-12-ner_jsl_emb_clinical_medium_en (#98)

* Add model 2023-04-12-ner_jsl_emb_clinical_medium_en

* Add model 2023-04-12-ner_jsl_emb_clinical_large_en

---------

Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>

* 2023-04-12-ner_sdoh_emb_clinical_medium_wip_en (#96)

* Add model 2023-04-12-ner_sdoh_emb_clinical_medium_wip_en

* Add model 2023-04-12-ner_sdoh_emb_clinical_large_wip_en

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Co-authored-by: hsaglamlar <hsaglamlar@gmail.com>

* 2023-04-13-ndc_hcpcs_mapper_en (#113)

* Add model 2023-04-13-ndc_hcpcs_mapper_en

* Add model 2023-04-13-hcpcs_ndc_mapper_en

---------

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* Add model 2023-04-13-medication_resolver_pipeline_en (#110)

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* Add model 2023-04-17-ner_sdoh_emb_clinical_large_wip_en (#126)

* Add model 2023-04-18-biogpt_chat_jsl_conversational_en (#130)

Co-authored-by: HashamUlHaq <Haashaamulhaq@gmail.com>

* 2023-04-20-explain_clinical_doc_medication_en (#140)

* Add model 2023-04-20-explain_clinical_doc_medication_en

* Add model 2023-04-20-explain_clinical_doc_radiology_en

* Add model 2023-04-20-explain_clinical_doc_ade_en

* Add model 2023-04-20-explain_clinical_doc_era_en

* Add model 2023-04-20-explain_clinical_doc_carp_en

---------

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-04-23-summarizer_jsl_radiology_en (#145)

* Update 2023-04-23-summarizer_jsl_radiology_en.md

* 2023-04-20-ner_vop_anatomy_wip_en (#139)

* 2023-04-26-ner_profiling_biobert_en (#151)

* 2023-04-27-genericclassifier_sdoh_housing_insecurity_sbiobert_cased_mli_en (#168)

* Update 2023-04-23-summarizer_jsl_radiology_en.md

* 2023-04-27-genericclassifier_sdoh_insurance_status_sbiobert_cased_mli_en (#170)

* Add model 2023-04-27-genericclassifier_sdoh_insurance_status_sbiobert_cased_mli_en

* Add model 2023-04-28-genericclassifier_sdoh_insurance_type_sbiobert_cased_mli_en

* Add model 2023-04-28-genericclassifier_sdoh_insurance_coverage_sbiobert_cased_mli_en

* Update 2023-04-27-genericclassifier_sdoh_insurance_status_sbiobert_cased_mli_en.md

* Update 2023-04-28-genericclassifier_sdoh_insurance_type_sbiobert_cased_mli_en.md

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Co-authored-by: hsaglamlar <hsaglamlar@gmail.com>
Co-authored-by: Halil Saglamlar <47859156+hsaglamlar@users.noreply.github.com>

* Add model 2023-05-01-bert_token_classifier_ner_jsl_en (#181)

Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>

* Add model 2023-04-28-icd10cm_resolver_pipeline_en (#174)

Co-authored-by: Meryem1425 <vildansarikaya25@gmail.com>

* 2023-04-28-ner_profiling_biobert_en (#171)

* Add model 2023-04-28-ner_profiling_biobert_en

* Add model 2023-04-28-ner_profiling_clinical_en

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Co-authored-by: Cabir40 <cabir4006@gmail.com>

* Add model 2023-05-02-ner_demographic_extended_en (#187)

Co-authored-by: andrei9825 <andrei@johnsnowlabs.com>

* Add model 2023-05-04-classifier_logreg_ade_en (#194)

Co-authored-by: gpirge <gursev.pirge@gmail.com>

* 2023-05-04-ner_profiling_clinical_en (#196)

* Update 2023-05-04-bert_token_classifier_ner_jsl_en.md

Add benchmark

* fixed typos on 2023-05-04-bert_token_classifier_ner_jsl_en.md

* 2023-05-05-ner_clinical_de (#199)

* 2023-05-04-classifierml_ade_en (#197)

* 2023-05-08-summarizer_clinical_key_facts_en (#201)

* Add model 2023-05-08-summarizer_clinical_key_facts_en

* Update 2023-05-08-summarizer_clinical_key_facts_en.md

changed model name

* Update 2023-05-08-summarizer_clinical_key_facts_en.md

Changed description

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Co-authored-by: HashamUlHaq <Haashaamulhaq@gmail.com>
Co-authored-by: Damla Gurbaz <81505007+Damla-Gurbaz@users.noreply.github.com>

* renamed md file

* 2023-05-09-generic_logreg_classifier_ade_en (#202)

* Add model 2023-05-09-generic_logreg_classifier_ade_en

* Update 2023-05-09-generic_logreg_classifier_ade_en.md

corrected the indentations of the Python codes

* Update 2023-05-09-generic_logreg_classifier_ade_en.md

changed the title

* Add model 2023-05-09-generic_svm_classifier_ade_en

---------

Co-authored-by: gpirge <gursev.pirge@gmail.com>
Co-authored-by: gursev.pirge <67619330+gpirge@users.noreply.github.com>

* Add model 2023-05-08-ner_clinical_de (#200)

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* Add model 2023-05-11-biogpt_chat_jsl_conditions_en (#204)

Co-authored-by: HashamUlHaq <Haashaamulhaq@gmail.com>

* 2023-05-11-classifier_logreg_ade_en (#209)

* Add model 2023-05-11-classifier_logreg_ade_en

* Add model 2023-05-11-classifierml_ade_en

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Co-authored-by: gpirge <gursev.pirge@gmail.com>

* 2023-05-12-ner_abbreviation_emb_clinical_medium_en (#214)

* Add model 2023-05-12-ner_abbreviation_emb_clinical_medium_en

* Add model 2023-05-12-ner_abbreviation_emb_clinical_large_en

* Update 2023-05-12-ner_abbreviation_emb_clinical_medium_en.md

* Update 2023-05-12-ner_abbreviation_emb_clinical_large_en.md

---------

Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>
Co-authored-by: Damla Gurbaz <81505007+Damla-Gurbaz@users.noreply.github.com>

* 2023-05-11-icd10cm_cause_claim_mapper_en (#210)

* Add model 2023-05-11-icd10cm_cause_claim_mapper_en

* Update 2023-05-11-icd10cm_cause_claim_mapper_en.md

The provided example is updated based on the review. Additional explanation is added for the case where there is no equivalent claim analysis code.

* Update 2023-05-11-icd10cm_cause_claim_mapper_en.md

* Update 2023-05-11-icd10cm_cause_claim_mapper_en.md

* Update 2023-05-11-icd10cm_cause_claim_mapper_en.md

* Update 2023-05-11-icd10cm_cause_claim_mapper_en.md

The output results are changed.

---------

Co-authored-by: SKocer <samedkocer22@gmail.com>
Co-authored-by: Samed K <110497137+SKocer@users.noreply.github.com>
Co-authored-by: muhammetsnts <76607915+muhammetsnts@users.noreply.github.com>

* Add model 2023-05-13-spellcheck_drug_norvig_en (#220)

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* Update 2023-05-08-summarizer_clinical_guidelines_large_en.md

* 2023-05-15-ner_anatomy_emb_clinical_medium_en (#225)

* Add model 2023-05-15-ner_anatomy_emb_clinical_medium_en

* Add model 2023-05-15-ner_anatomy_emb_clinical_large_en

* Update 2023-05-15-ner_anatomy_emb_clinical_medium_en.md

* Update 2023-05-15-ner_anatomy_emb_clinical_large_en.md

* Update 2023-05-15-ner_anatomy_emb_clinical_medium_en.md

* Update 2023-05-15-ner_anatomy_emb_clinical_large_en.md

* Update 2023-05-15-ner_anatomy_emb_clinical_medium_en.md

---------

Co-authored-by: gokhanturer <mgturer@gmail.com>
Co-authored-by: Gökhan <81560784+gokhanturer@users.noreply.github.com>

* 2023-05-15-biogpt_pubmed_qa_en (#227)

* Add model 2023-05-15-biogpt_pubmed_qa_en

* Update 2023-05-15-biogpt_pubmed_qa_en.md

* Add model 2023-05-15-flan_t5_base_jsl_qa_en

* Update 2023-05-15-flan_t5_base_jsl_qa_en.md

---------

Co-authored-by: Cabir40 <cabir4006@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>

* Add model 2023-05-17-medical_qa_biogpt_en (#234)

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* Update 2023-04-20-explain_clinical_doc_carp_en.md

* Update 2023-04-20-explain_clinical_doc_era_en.md

* Update 2023-04-20-explain_clinical_doc_carp_en.md

* Update 2023-04-28-icd10cm_resolver_pipeline_en.md

* Update 2023-05-08-summarizer_clinical_guidelines_large_en.md

* 2023-05-20-sbiobertresolve_icd10cm_augmented_en (#243)

* Add model 2023-05-20-sbiobertresolve_icd10cm_augmented_en

* Update 2023-05-20-sbiobertresolve_icd10cm_augmented_en.md

* Update 2023-05-20-sbiobertresolve_icd10cm_augmented_en.md

* Update 2023-05-20-sbiobertresolve_icd10cm_augmented_en.md

---------

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>
Co-authored-by: muhammetsnts <76607915+muhammetsnts@users.noreply.github.com>

* 2023-05-21-ner_ade_emb_clinical_medium_en (#244)

* Add model 2023-05-21-ner_ade_emb_clinical_medium_en

* Add model 2023-05-21-ner_ade_emb_clinical_large_en

* Add model 2023-05-24-ner_cellular_emb_clinical_medium_en

* Add model 2023-05-24-ner_cellular_emb_clinical_large_en

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Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>

* 2023-05-23-ner_bacterial_species_emb_clinical_medium_en (#252)

* Add model 2023-05-23-ner_bacterial_species_emb_clinical_medium_en

* Update 2023-05-23-ner_bacterial_species_emb_clinical_medium_en.md

* Add model 2023-05-23-ner_bacterial_species_emb_clinical_large_en

* Update 2023-05-23-ner_bacterial_species_emb_clinical_large_en.md

* Update 2023-05-23-ner_bacterial_species_emb_clinical_medium_en.md

* Update 2023-05-23-ner_bacterial_species_emb_clinical_large_en.md

* Update 2023-05-23-ner_bacterial_species_emb_clinical_medium_en.md

---------

Co-authored-by: gokhanturer <mgturer@gmail.com>
Co-authored-by: Gökhan <81560784+gokhanturer@users.noreply.github.com>

* 2023-05-19-ner_vop_wip_en (#242)

* Add model 2023-05-19-ner_vop_wip_en

* Add model 2023-05-19-ner_vop_wip_embeddings_clinical_medium_en

* Add model 2023-05-19-ner_vop_wip_embeddings_clinical_large_en

* Add model 2023-05-19-ner_vop_anatomy_wip_en

* Add model 2023-05-19-ner_vop_clinical_dept_wip_en

* Add model 2023-05-19-ner_vop_demographic_wip_en

* Add model 2023-05-19-ner_vop_problem_reduced_wip_en

* Add model 2023-05-19-ner_vop_problem_wip_en

* Add model 2023-05-19-ner_vop_temporal_wip_en

* Add model 2023-05-19-ner_vop_test_wip_en

* Add model 2023-05-19-ner_vop_treatment_wip_en

* Update 2023-05-19-ner_vop_anatomy_wip_en.md

Fixing wrong special character (").

* Update 2023-05-19-ner_vop_treatment_wip_en.md

Fixing special character (" to ').

* Update 2023-05-19-ner_vop_test_wip_en.md

Fixing special character (" to ').

* Update 2023-05-19-ner_vop_temporal_wip_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_problem_wip_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_problem_reduced_wip_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_demographic_wip_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_clinical_dept_wip_en.md

Adding sample text.

* Update 2023-05-19-ner_vop_wip_embeddings_clinical_large_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_wip_embeddings_clinical_medium_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_wip_en.md

Special character fix (" to ').

* Update 2023-05-19-ner_vop_wip_embeddings_clinical_medium_en.md

Changing model name ner_vop_wip_embeddings_clinical_medium to ner_vop_wip_emb_clinical_medium.

* Update 2023-05-19-ner_vop_wip_embeddings_clinical_large_en.md

Changing model name ner_vop_wip_embeddings_clinical_large to ner_vop_wip_emb_clinical_large.

* Update 2023-05-19-ner_vop_wip_embeddings_clinical_medium_en.md

Changed s3 link.

* Update 2023-05-19-ner_vop_wip_embeddings_clinical_large_en.md

Changed s3 link.

* Add model 2023-05-24-bert_sequence_classifier_vop_side_effect_en

* Update 2023-05-24-bert_sequence_classifier_vop_side_effect_en.md

* Update 2023-05-24-bert_sequence_classifier_vop_side_effect_en.md

Minor edit.

* Update 2023-05-24-bert_sequence_classifier_vop_side_effect_en.md

Minor edit.

---------

Co-authored-by: mauro-nievoff <mauro.nievasoffidani@gmail.com>
Co-authored-by: mauro-nievoff <55700369+mauro-nievoff@users.noreply.github.com>

* 2023-05-24-sbiobertresolve_icd10cm_generalised_augmented_en (#256)

* 2023-05-29-summarizer_clinical_jsl_pipeline_en (#282)

* 2023-05-29-arabic_medical_ner_model_specific_17_entities_ar (#283)

* Add model 2023-05-29-arabic_medical_ner_model_specific_17_entities_ar

* Update 2023-05-29-arabic_medical_ner_model_specific_17_entities_ar.md

* update md file name

* Add model 2023-05-30-ner_deid_generic_ar

* fixed typos

* fixed typos

---------

Co-authored-by: mellahysf <ysfmell@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>
Co-authored-by: Cabir ÇELİK <ogr.cabir.celik@ahievran.edu.tr>

* 2023-05-29-summarizer_clinical_layman_en (#280)

* Add model 2023-05-29-summarizer_clinical_layman_en

* Update 2023-05-29-summarizer_clinical_layman_en.md

* update model name

* Added English names to the example text

---------

Co-authored-by: dcecchini <dadachini@hotmail.com>
Co-authored-by: Cabir ÇELİK <ogr.cabir.celik@ahievran.edu.tr>

* 2023-05-26-icd10cm_billable_hcc_mapper_en (#266)

* Add model 2023-05-26-icd10cm_billable_hcc_mapper_en

* Update 2023-05-26-icd10cm_billable_hcc_mapper_en.md

md file was fixed based on the feedback.

* Update 2023-05-26-icd10cm_billable_hcc_mapper_en.md

---------

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>
Co-authored-by: muhammetsnts <76607915+muhammetsnts@users.noreply.github.com>

* 2023-05-16-classifier_logreg_ade_en (#232)

* 2023-05-30-genericclassifier_sdoh_housing_insecurity_sbiobert_cased_mli_en (#299)

* 2023-05-30-icd10cm_mapper_en (#295)

* 2023-05-31-sbiobertresolve_hcc_augmented_en (#304)

* Add model 2023-05-31-sbiobertresolve_hcc_augmented_en

* Update 2023-05-31-sbiobertresolve_hcc_augmented_en.md

---------

Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>

* 2023-05-31-summarizer_clinical_guidelines_large_pipeline_en (#305)

* Add model 2023-05-31-summarizer_clinical_guidelines_large_pipeline_en

* Add model 2023-05-31-summarizer_radiology_pipeline_en

* Add model 2023-05-31-summarizer_clinical_questions_pipeline_en

* Add model 2023-05-31-summarizer_biomedical_pubmed_pipeline_en

* Delete 2023-05-31-summarizer_biomedical_pubmed_pipeline_en.md

* Add model 2023-05-31-summarizer_generic_jsl_pipeline_en

* Add model 2023-05-31-summarizer_biomedical_pubmed_pipeline_en

* Add model 2023-05-31-summarizer_clinical_jsl_augmented_pipeline_en

* Add model 2023-05-31-summarizer_clinical_jsl_pipeline_en

---------

Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>
Co-authored-by: Damla Gurbaz <81505007+Damla-Gurbaz@users.noreply.github.com>

* 2023-05-31-sbertresolve_icd10cm_slim_billable_hcc_en (#302)

* 2023-05-31-sbertresolve_icd10cm_augmented_en (#306)

* Update 2023-05-26-icd10cm_billable_hcc_mapper_en.md

* 2023-05-31-ner_deid_subentity_pipeline_ar (#313)

* Add model 2023-05-31-ner_deid_subentity_pipeline_ar

* Add model 2023-05-31-ner_deid_generic_pipeline_ar

---------

Co-authored-by: mellahysf <ysfmell@gmail.com>

* 2023-05-31-ner_deid_subentity_pipeline_ar (#313)

* Add model 2023-05-31-ner_deid_subentity_pipeline_ar

* Add model 2023-05-31-ner_deid_generic_pipeline_ar

* Update 2023-05-31-ner_deid_subentity_pipeline_ar.md

---------

Co-authored-by: mellahysf <ysfmell@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>

* 2023-06-02-ner_chemicals_emb_clinical_large_en (#327)

* Add model 2023-06-06-ner_deid_generic_pipeline_ar (#351)

* 2023-06-06-ner_vop_en (#350)

* Add model 2023-06-08-ner_demographic_extended_healthcare_en (#359)

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-06-06-summarizer_clinical_laymen_pipeline_en (#352)

* Add model 2023-06-06-summarizer_clinical_laymen_pipeline_en

* Add model 2023-06-06-bert_token_classifier_ner_jsl_pipeline_en

* Add model 2023-06-06-bert_token_classifier_ner_jsl_pipeline_en

* Add model 2023-06-07-bert_token_classifier_ner_jsl_pipeline_en

---------

Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>

* Add model 2023-06-11-ner_profiling_biobert_en (#362)

Co-authored-by: ahmedlone127 <ahmedlone127@gmail.com>

* 2023-06-09-ner_vop_pipeline_en (#361)

* Add model 2023-06-09-ner_vop_pipeline_en

* Add model 2023-06-09-ner_vop_anatomy_pipeline_en

* Add model 2023-06-10-ner_vop_clinical_dept_pipeline_en

* Add model 2023-06-10-ner_vop_demographic_pipeline_en

* Add model 2023-06-10-ner_vop_problem_pipeline_en

* Add model 2023-06-10-ner_vop_problem_reduced_pipeline_en

* Add model 2023-06-10-ner_vop_temporal_pipeline_en

* Add model 2023-06-10-ner_vop_test_pipeline_en

* Add model 2023-06-10-ner_vop_treatment_pipeline_en

---------

Co-authored-by: mauro-nievoff <mauro.nievasoffidani@gmail.com>

* Add model 2023-06-13-ner_sdoh_en (#370)

Co-authored-by: hsaglamlar <hsaglamlar@gmail.com>

* Add model 2023-06-13-icd10cm_umls_mapping_en (#373)

Co-authored-by: C-K-Loan <christian.kasim.loan@gmail.com>

* 2023-06-13-ner_profiling_biobert_en (#368)

* Add model 2023-06-13-ner_profiling_biobert_en

* Add model 2023-06-13-explain_clinical_doc_carp_en

* Add model 2023-06-13-explain_clinical_doc_era_en

* Add model 2023-06-13-snomed_icd10cm_mapping_en

* Add model 2023-06-13-icd10cm_umls_mapping_en

* Add model 2023-06-13-mesh_umls_mapping_en

* Add model 2023-06-13-snomed_umls_mapping_en

* Add model 2023-06-13-re_bodypart_directions_pipeline_en

* Add model 2023-06-13-icd10_icd9_mapping_en

* Add model 2023-06-13-re_bodypart_proceduretest_pipeline_en

* Add model 2023-06-13-re_human_phenotype_gene_clinical_pipeline_en

* Add model 2023-06-13-re_temporal_events_clinical_pipeline_en

* Add model 2023-06-13-re_temporal_events_enriched_clinical_pipeline_en

* Add model 2023-06-13-re_test_problem_finding_pipeline_en

* Add model 2023-06-13-re_test_result_date_pipeline_en

* Add model 2023-06-13-explain_clinical_doc_medication_en

* Add model 2023-06-13-icdo_snomed_mapping_en

* Add model 2023-06-13-rxnorm_ndc_mapping_en

* Add model 2023-06-13-snomed_icdo_mapping_en

* Add model 2023-06-13-oncology_general_pipeline_en

* Add model 2023-06-13-oncology_biomarker_pipeline_en

* Add model 2023-06-13-ner_eu_clinical_condition_pipeline_eu

* Add model 2023-06-13-ner_eu_clinical_case_pipeline_en

* Add model 2023-06-13-ner_eu_clinical_case_pipeline_es

* Add model 2023-06-13-ner_eu_clinical_case_pipeline_eu

* Add model 2023-06-13-ner_eu_clinical_case_pipeline_fr

* Add model 2023-06-13-ner_eu_clinical_condition_pipeline_es

* Add model 2023-06-13-ner_eu_clinical_condition_pipeline_fr

* Add model 2023-06-13-ner_eu_clinical_condition_pipeline_it

* Add model 2023-06-13-ner_oncology_anatomy_general_healthcare_pipeline_en

* Add model 2023-06-13-ner_oncology_anatomy_general_pipeline_en

* Add model 2023-06-13-ner_oncology_biomarker_healthcare_pipeline_en

* Add model 2023-06-13-ner_oncology_posology_pipeline_en

* Add model 2023-06-13-ner_oncology_unspecific_posology_healthcare_pipeline_en

* Add model 2023-06-13-ner_sdoh_mentions_pipeline_en

* Add model 2023-06-13-ner_clinical_bert_pipeline_ro

* Add model 2023-06-13-ner_clinical_pipeline_ro

* Add model 2023-06-13-ner_clinical_trials_abstracts_pipeline_es

* Add model 2023-06-13-ner_covid_trials_pipeline_en

* Add model 2023-06-13-ner_deid_generic_bert_pipeline_ro

* Add model 2023-06-13-ner_deid_generic_pipeline_ro

* Add model 2023-06-13-ner_deid_subentity_bert_pipeline_ro

* Add model 2023-06-13-ner_deid_subentity_pipeline_ro

* Add model 2023-06-13-ner_living_species_300_pipeline_es

* Add model 2023-06-13-ner_negation_uncertainty_pipeline_es

* Add model 2023-06-13-ner_oncology_biomarker_pipeline_en

* Add model 2023-06-13-ner_oncology_demographics_pipeline_en

* Add model 2023-06-13-ner_oncology_diagnosis_pipeline_en

* Add model 2023-06-13-ner_oncology_response_to_treatment_pipeline_en

* Add model 2023-06-13-ner_oncology_test_pipeline_en

* Add model 2023-06-13-ner_oncology_therapy_pipeline_en

* Add model 2023-06-13-ner_oncology_tnm_pipeline_en

* Add model 2023-06-13-ner_oncology_unspecific_posology_pipeline_en

* Add model 2023-06-13-ner_pharmacology_pipeline_es

* Add model 2023-06-13-ner_deid_generic_glove_pipeline_en

* Add model 2023-06-13-ner_deid_generic_pipeline_it

* Add model 2023-06-13-ner_deid_subentity_glove_pipeline_en

* Add model 2023-06-13-ner_deid_subentity_pipeline_it

* Add model 2023-06-13-ner_deid_synthetic_pipeline_en

* Add model 2023-06-13-ner_living_species_bert_pipeline_es

* Add model 2023-06-13-ner_living_species_bert_pipeline_fr

* Add model 2023-06-13-ner_living_species_bert_pipeline_it

* Add model 2023-06-13-ner_living_species_bert_pipeline_pt

* Add model 2023-06-13-ner_living_species_bert_pipeline_ro

* Add model 2023-06-13-ner_living_species_pipeline_ca

* Add model 2023-06-13-ner_living_species_pipeline_en

* Add model 2023-06-13-ner_living_species_pipeline_es

* Add model 2023-06-13-ner_living_species_pipeline_fr

* Add model 2023-06-13-ner_living_species_pipeline_gl

* Add model 2023-06-13-ner_living_species_pipeline_it

* Add model 2023-06-13-ner_living_species_pipeline_pt

* Add model 2023-06-13-ner_living_species_roberta_pipeline_es

* Add model 2023-06-13-ner_living_species_roberta_pipeline_pt

* Add model 2023-06-13-ner_chemd_clinical_pipeline_en

* Add model 2023-06-13-ner_nature_nero_clinical_pipeline_en

* Add model 2023-06-13-ner_supplement_clinical_pipeline_en

* Add model 2023-06-13-nerdl_tumour_demo_pipeline_en

* Add model 2023-06-13-ner_diag_proc_pipeline_es

* Add model 2023-06-13-ner_healthcare_pipeline_de

* Add model 2023-06-13-ner_healthcare_slim_pipeline_de

* Add model 2023-06-13-ner_neoplasms_pipeline_es

* Add model 2023-06-13-bert_token_classifier_ade_tweet_binary_pipeline_en

* Add model 2023-06-13-bert_token_classifier_negation_uncertainty_pipeline_es

* Add model 2023-06-13-bert_token_classifier_ner_ade_binary_pipeline_en

* Add model 2023-06-13-bert_token_classifier_disease_mentions_tweet_pipeline_es

* Add model 2023-06-13-bert_token_classifier_ner_anatem_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_bc5cdr_chemicals_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_bc4chemd_chemicals_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_clinical_trials_abstracts_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_living_species_pipeline_es

* Add model 2023-06-13-bert_token_classifier_ner_living_species_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_bc2gm_gene_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_linnaeus_species_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_living_species_pipeline_pt

* Add model 2023-06-13-bert_token_classifier_ner_jnlpba_cellular_pipeline_en

* Add model 2023-06-13-ner_living_species_biobert_pipeline_en

* Add model 2023-06-13-bert_token_classifier_pharmacology_pipeline_es

* Add model 2023-06-13-bert_token_classifier_ner_species_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_clinical_trials_abstracts_pipeline_es

* Add model 2023-06-13-bert_token_classifier_ner_bc5cdr_disease_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_living_species_pipeline_it

* Add model 2023-06-13-bert_token_classifier_ner_pathogen_pipeline_en

* Add model 2023-06-13-bert_token_classifier_ner_ncbi_disease_pipeline_en

---------

Co-authored-by: ahmedlone127 <ahmedlone127@gmail.com>

* 2023-06-13-ner_profiling_biobert_en (#375)

* Add model 2023-06-13-ner_profiling_biobert_en

* Add model 2023-06-13-snomed_icd10cm_mapping_en

* Add model 2023-06-13-recognize_entities_posology_en

* Add model 2023-06-13-icd10cm_umls_mapping_en

* Add model 2023-06-13-mesh_umls_mapping_en

* Add model 2023-06-13-clinical_deidentification_de

* Add model 2023-06-13-rxnorm_mesh_mapping_en

* Add model 2023-06-13-clinical_deidentification_augmented_es

* Add model 2023-06-13-clinical_deidentification_es

* Add model 2023-06-13-clinical_deidentification_glove_en

* Add model 2023-06-13-clinical_deidentification_fr

* Add model 2023-06-13-ner_deid_generic_augmented_pipeline_en

* Add model 2023-06-13-snomed_umls_mapping_en

* Add model 2023-06-13-rxnorm_umls_mapping_en

* Add model 2023-06-13-icd10_icd9_mapping_en

* Add model 2023-06-13-bert_token_classifier_ner_jsl_pipeline_en

* Add model 2023-06-13-clinical_deidentification_it

* Add model 2023-06-13-re_bodypart_directions_pipeline_en

* Add model 2023-06-13-re_bodypart_proceduretest_pipeline_en

* Add model 2023-06-13-re_human_phenotype_gene_clinical_pipeline_en

* Add model 2023-06-13-re_temporal_events_clinical_pipeline_en

* Add model 2023-06-13-re_temporal_events_enriched_clinical_pipeline_en

* Add model 2023-06-13-re_test_problem_finding_pipeline_en

* Add model 2023-06-13-re_test_result_date_pipeline_en

* Add model 2023-06-13-clinical_deidentification_pt

* Add model 2023-06-13-bert_sequence_classifier_binary_rct_biobert_pipeline_en

* Add model 2023-06-13-icd10cm_snomed_mapping_en

* Add model 2023-06-13-icdo_snomed_mapping_en

* Add model 2023-06-13-rxnorm_ndc_mapping_en

* Add model 2023-06-13-clinical_deidentification_ro

* Add model 2023-06-13-clinical_deidentification_slim_en

* Add model 2023-06-13-ner_medication_pipeline_en

* Add model 2023-06-13-snomed_icdo_mapping_en

* Add model 2023-06-13-ner_deid_subentity_pipeline_ar

---------

Co-authored-by: C-K-Loan <christian.kasim.loan@gmail.com>

* 2023-06-13-bert_sequence_classifier_vop_drug_side_effect_en (#376)

* Add model 2023-06-14-clinical_deidentification_ar (#382)

* 2023-06-13-recognize_entities_posology_en (#378)

* Add model 2023-06-13-recognize_entities_posology_en

* Add model 2023-06-13-snomed_icd10cm_mapping_en

* Add model 2023-06-13-icd10cm_umls_mapping_en

* Add model 2023-06-13-mesh_umls_mapping_en

* Add model 2023-06-13-clinical_deidentification_de

* Add model 2023-06-13-clinical_deidentification_es

* Add model 2023-06-13-snomed_umls_mapping_en

* Add model 2023-06-13-rxnorm_umls_mapping_en

* Add model 2023-06-13-clinical_deidentification_glove_en

* Add model 2023-06-13-ner_deid_generic_augmented_pipeline_en

* Add model 2023-06-13-clinical_deidentification_fr

* Add model 2023-06-13-icd10_icd9_mapping_en

* Add model 2023-06-13-bert_token_classifier_ner_jsl_pipeline_en

* Add model 2023-06-13-clinical_deidentification_augmented_es

* Add model 2023-06-13-rxnorm_mesh_mapping_en

* Add model 2023-06-13-re_bodypart_directions_pipeline_en

* Add model 2023-06-13-clinical_deidentification_it

* Add model 2023-06-13-re_bodypart_proceduretest_pipeline_en

* Add model 2023-06-13-re_human_phenotype_gene_clinical_pipeline_en

* Add model 2023-06-13-re_temporal_events_clinical_pipeline_en

* Add model 2023-06-13-re_temporal_events_enriched_clinical_pipeline_en

* Add model 2023-06-13-re_test_problem_finding_pipeline_en

* Add model 2023-06-13-re_test_result_date_pipeline_en

* Add model 2023-06-13-clinical_deidentification_pt

* Add model 2023-06-13-bert_sequence_classifier_binary_rct_biobert_pipeline_en

* Add model 2023-06-13-icd10cm_snomed_mapping_en

* Add model 2023-06-13-icdo_snomed_mapping_en

* Add model 2023-06-13-rxnorm_ndc_mapping_en

* Add model 2023-06-13-clinical_deidentification_ro

* Add model 2023-06-13-clinical_deidentification_slim_en

* Add model 2023-06-13-ner_medication_pipeline_en

* Add model 2023-06-13-snomed_icdo_mapping_en

* Add model 2023-06-13-ner_deid_subentity_pipeline_ar

---------

Co-authored-by: Cabir40 <cabir4006@gmail.com>

* 2023-06-13-bert_sequence_classifier_vop_side_effect_pipeline_en (#380)

---------

Co-authored-by: jsl-models <74001263+jsl-models@users.noreply.github.com>
Co-authored-by: Ahmetemintek <ahmetemin.tek.66@gmail.com>
Co-authored-by: Cabir40 <cabir4006@gmail.com>
Co-authored-by: Cabir C <64752006+Cabir40@users.noreply.github.com>
Co-authored-by: Damla-Gurbaz <dml.grbz.01@gmail.com>
Co-authored-by: Veysel Kocaman <vkocaman@gmail.com>
Co-authored-by: mauro-nievoff <mauro.nievasoffidani@gmail.com>
Co-authored-by: Damla Gurbaz <81505007+Damla-Gurbaz@users.noreply.github.com>
Co-authored-by: hsaglamlar <hsaglamlar@gmail.com>
Co-authored-by: Cabir ÇELİK <ogr.cabir.celik@ahievran.edu.tr>
Co-authored-by: SKocer <samedkocer22@gmail.com>
Co-authored-by: Meryem1425 <vildansarikaya25@gmail.com>
Co-authored-by: HashamUlHaq <Haashaamulhaq@gmail.com>
Co-authored-by: Halil Saglamlar <47859156+hsaglamlar@users.noreply.github.com>
Co-authored-by: andrei9825 <andrei@johnsnowlabs.com>
Co-authored-by: gpirge <gursev.pirge@gmail.com>
Co-authored-by: gursev.pirge <67619330+gpirge@users.noreply.github.com>
Co-authored-by: Samed K <110497137+SKocer@users.noreply.github.com>
Co-authored-by: muhammetsnts <76607915+muhammetsnts@users.noreply.github.com>
Co-authored-by: mauro-nievoff <55700369+mauro-nievoff@users.noreply.github.com>
Co-authored-by: mellahysf <ysfmell@gmail.com>
Co-authored-by: dcecchini <dadachini@hotmail.com>
Co-authored-by: ahmedlone127 <ahmedlone127@gmail.com>
Co-authored-by: C-K-Loan <christian.kasim.loan@gmail.com>

docs/_posts/Cabir40/2023-06-13-bert_token_classifier_ner_jsl_pipeline_en.md

@@ -0,0 +1,150 @@
+---
+layout: model
+title: Pipeline to Detect Clinical Entities (BertForTokenClassifier)
+author: John Snow Labs
+name: bert_token_classifier_ner_jsl_pipeline
+date: 2023-06-13
+tags: [ner_jsl, ner, berfortokenclassification, en, licensed]
+task: Named Entity Recognition
+language: en
+edition: Healthcare NLP 4.4.4
+spark_version: 3.4
+supported: true
+annotator: PipelineModel
+article_header:
+  type: cover
+use_language_switcher: "Python-Scala-Java"
+---
+
+## Description
+
+This pretrained pipeline is built on the top of [bert_token_classifier_ner_jsl](https://nlp.johnsnowlabs.com/2022/03/21/bert_token_classifier_ner_jsl_en_2_4.html) model.
+
+## Predicted Entities
+
+
+
+{:.btn-box}
+<button class="button button-orange" disabled>Live Demo</button>
+<button class="button button-orange" disabled>Open in Colab</button>
+[Download](https://s3.amazonaws.com/auxdata.johnsnowlabs.com/clinical/models/bert_token_classifier_ner_jsl_pipeline_en_4.4.4_3.4_1686675054357.zip){:.button.button-orange.button-orange-trans.arr.button-icon.hidden}
+[Copy S3 URI](s3://auxdata.johnsnowlabs.com/clinical/models/bert_token_classifier_ner_jsl_pipeline_en_4.4.4_3.4_1686675054357.zip){:.button.button-orange.button-orange-trans.button-icon.button-copy-s3}
+
+## How to use
+
+<div class="tabs-box" markdown="1">
+{% include programmingLanguageSelectScalaPythonNLU.html %}
+```python
+from sparknlp.pretrained import PretrainedPipeline
+
+pipeline = PretrainedPipeline("bert_token_classifier_ner_jsl_pipeline", "en", "clinical/models")
+
+text = '''The patient is a 21-day-old Caucasian male here for 2 days of congestion - mom has been suctioning yellow discharge from the patient's nares, plus she has noticed some mild problems with his breathing while feeding (but negative for any perioral cyanosis or retractions). One day ago, mom also noticed a tactile temperature and gave the patient Tylenol. Baby-girl also has had some decreased p.o. intake. His normal breast-feeding is down from 20 minutes q.2h. to 5 to 10 minutes secondary to his respiratory congestion. He sleeps well, but has been more tired and has been fussy over the past 2 days. The parents noticed no improvement with albuterol treatments given in the ER. His urine output has also decreased; normally he has 8 to 10 wet and 5 dirty diapers per 24 hours, now he has down to 4 wet diapers per 24 hours. Mom denies any diarrhea. His bowel movements are yellow colored and soft in nature.'''
+
+result = pipeline.fullAnnotate(text)
+```
+```scala
+import com.johnsnowlabs.nlp.pretrained.PretrainedPipeline
+
+val pipeline = new PretrainedPipeline("bert_token_classifier_ner_jsl_pipeline", "en", "clinical/models")
+
+val text = "The patient is a 21-day-old Caucasian male here for 2 days of congestion - mom has been suctioning yellow discharge from the patient's nares, plus she has noticed some mild problems with his breathing while feeding (but negative for any perioral cyanosis or retractions). One day ago, mom also noticed a tactile temperature and gave the patient Tylenol. Baby-girl also has had some decreased p.o. intake. His normal breast-feeding is down from 20 minutes q.2h. to 5 to 10 minutes secondary to his respiratory congestion. He sleeps well, but has been more tired and has been fussy over the past 2 days. The parents noticed no improvement with albuterol treatments given in the ER. His urine output has also decreased; normally he has 8 to 10 wet and 5 dirty diapers per 24 hours, now he has down to 4 wet diapers per 24 hours. Mom denies any diarrhea. His bowel movements are yellow colored and soft in nature."
+
+val result = pipeline.fullAnnotate(text)
+```
+
+
+{:.nlu-block}
+```python
+import nlu
+nlu.load("en.classify.bert_token_ner_jsl.pipeline").predict("""The patient is a 21-day-old Caucasian male here for 2 days of congestion - mom has been suctioning yellow discharge from the patient's nares, plus she has noticed some mild problems with his breathing while feeding (but negative for any perioral cyanosis or retractions). One day ago, mom also noticed a tactile temperature and gave the patient Tylenol. Baby-girl also has had some decreased p.o. intake. His normal breast-feeding is down from 20 minutes q.2h. to 5 to 10 minutes secondary to his respiratory congestion. He sleeps well, but has been more tired and has been fussy over the past 2 days. The parents noticed no improvement with albuterol treatments given in the ER. His urine output has also decreased; normally he has 8 to 10 wet and 5 dirty diapers per 24 hours, now he has down to 4 wet diapers per 24 hours. Mom denies any diarrhea. His bowel movements are yellow colored and soft in nature.""")
+```
+
+</div>
+
+<div class="tabs-box" markdown="1">
+{% include programmingLanguageSelectScalaPythonNLU.html %}
+```python
+from sparknlp.pretrained import PretrainedPipeline
+
+pipeline = PretrainedPipeline("bert_token_classifier_ner_jsl_pipeline", "en", "clinical/models")
+
+text = '''The patient is a 21-day-old Caucasian male here for 2 days of congestion - mom has been suctioning yellow discharge from the patient's nares, plus she has noticed some mild problems with his breathing while feeding (but negative for any perioral cyanosis or retractions). One day ago, mom also noticed a tactile temperature and gave the patient Tylenol. Baby-girl also has had some decreased p.o. intake. His normal breast-feeding is down from 20 minutes q.2h. to 5 to 10 minutes secondary to his respiratory congestion. He sleeps well, but has been more tired and has been fussy over the past 2 days. The parents noticed no improvement with albuterol treatments given in the ER. His urine output has also decreased; normally he has 8 to 10 wet and 5 dirty diapers per 24 hours, now he has down to 4 wet diapers per 24 hours. Mom denies any diarrhea. His bowel movements are yellow colored and soft in nature.'''
+
+result = pipeline.fullAnnotate(text)
+```
+```scala
+import com.johnsnowlabs.nlp.pretrained.PretrainedPipeline
+
+val pipeline = new PretrainedPipeline("bert_token_classifier_ner_jsl_pipeline", "en", "clinical/models")
+
+val text = "The patient is a 21-day-old Caucasian male here for 2 days of congestion - mom has been suctioning yellow discharge from the patient's nares, plus she has noticed some mild problems with his breathing while feeding (but negative for any perioral cyanosis or retractions). One day ago, mom also noticed a tactile temperature and gave the patient Tylenol. Baby-girl also has had some decreased p.o. intake. His normal breast-feeding is down from 20 minutes q.2h. to 5 to 10 minutes secondary to his respiratory congestion. He sleeps well, but has been more tired and has been fussy over the past 2 days. The parents noticed no improvement with albuterol treatments given in the ER. His urine output has also decreased; normally he has 8 to 10 wet and 5 dirty diapers per 24 hours, now he has down to 4 wet diapers per 24 hours. Mom denies any diarrhea. His bowel movements are yellow colored and soft in nature."
+
+val result = pipeline.fullAnnotate(text)
+```
+
+{:.nlu-block}
+```python
+import nlu
+nlu.load("en.classify.bert_token_ner_jsl.pipeline").predict("""The patient is a 21-day-old Caucasian male here for 2 days of congestion - mom has been suctioning yellow discharge from the patient's nares, plus she has noticed some mild problems with his breathing while feeding (but negative for any perioral cyanosis or retractions). One day ago, mom also noticed a tactile temperature and gave the patient Tylenol. Baby-girl also has had some decreased p.o. intake. His normal breast-feeding is down from 20 minutes q.2h. to 5 to 10 minutes secondary to his respiratory congestion. He sleeps well, but has been more tired and has been fussy over the past 2 days. The parents noticed no improvement with albuterol treatments given in the ER. His urine output has also decreased; normally he has 8 to 10 wet and 5 dirty diapers per 24 hours, now he has down to 4 wet diapers per 24 hours. Mom denies any diarrhea. His bowel movements are yellow colored and soft in nature.""")
+```
+</div>
+
+## Results
+
+```bash
+Results
+
+
+|    | ner_chunk                        |   begin |   end | ner_label    |   confidence |
+|---:|:---------------------------------|--------:|------:|:-------------|-------------:|
+|  0 | 21-day-old                       |      17 |    26 | Age          |     0.999456 |
+|  1 | Caucasian male                   |      28 |    41 | Demographics |     0.9901   |
+|  2 | congestion                       |      62 |    71 | Symptom      |     0.997918 |
+|  3 | mom                              |      75 |    77 | Demographics |     0.999013 |
+|  4 | yellow discharge                 |      99 |   114 | Symptom      |     0.998663 |
+|  5 | nares                            |     135 |   139 | Body_Part    |     0.998609 |
+|  6 | she                              |     147 |   149 | Demographics |     0.999442 |
+|  7 | mild problems with his breathing |     168 |   199 | Symptom      |     0.930385 |
+|  8 | perioral cyanosis                |     237 |   253 | Symptom      |     0.99819  |
+|  9 | retractions                      |     258 |   268 | Symptom      |     0.999783 |
+| 10 | One day ago                      |     272 |   282 | Date_Time    |     0.999386 |
+| 11 | mom                              |     285 |   287 | Demographics |     0.999835 |
+| 12 | tactile temperature              |     304 |   322 | Symptom      |     0.999352 |
+| 13 | Tylenol                          |     345 |   351 | Drug         |     0.999762 |
+| 14 | Baby-girl                        |     354 |   362 | Age          |     0.980529 |
+| 15 | decreased p.o. intake            |     382 |   402 | Symptom      |     0.998978 |
+| 16 | His                              |     405 |   407 | Demographics |     0.999913 |
+| 17 | breast-feeding                   |     416 |   429 | Body_Part    |     0.99954  |
+| 18 | his                              |     493 |   495 | Demographics |     0.999661 |
+| 19 | respiratory congestion           |     497 |   518 | Symptom      |     0.834984 |
+| 20 | He                               |     521 |   522 | Demographics |     0.999858 |
+| 21 | tired                            |     555 |   559 | Symptom      |     0.999516 |
+| 22 | fussy                            |     574 |   578 | Symptom      |     0.997592 |
+| 23 | over the past 2 days             |     580 |   599 | Date_Time    |     0.994786 |
+| 24 | albuterol                        |     642 |   650 | Drug         |     0.999735 |
+
+
+{:.model-param}
+```
+
+{:.model-param}
+## Model Information
+
+{:.table-model}
+|---|---|
+|Model Name:|bert_token_classifier_ner_jsl_pipeline|
+|Type:|pipeline|
+|Compatibility:|Healthcare NLP 4.4.4+|
+|License:|Licensed|
+|Edition:|Official|
+|Language:|en|
+|Size:|405.0 MB|
+
+## Included Models
+
+- DocumentAssembler
+- SentenceDetectorDLModel
+- TokenizerModel
+- MedicalBertForTokenClassifier
+- NerConverterInternalModel