CogStack-SemEHR
Surfacing Semantic Data from Clinical Notes in Electronic Health Records for Tailored Care, Trial Recruitment and Clinical Research
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최종 버전 다운로드 (.zip)- vcs.xml
- anonymise_rules.json
- tpconn.json
- __init__.py
- data_analyzer.py
- phenotype_mention_validation.py
- tp_helper.py
- __init__.py
- addiction_use_case.py
- clinical_doc_wrapper.py
- cohort_analysis_helper.py
- copors_analyser.py
- discharge_summary_parser.py
- doc_reader.py
- semquery.py
- vector_generator.py
- cohort_conf.json
- cohort_extract.sh
- docker-compose.yml
- docker_autoimmune_settings.json
- docker_doc_based_settings.json
- Dockerfile
- linux_odbc_init_temp.sh
- README.md
- semehr.sh
- delete.me
- logo.png
- _config.yml
- delete.me
- index.md
- tutorials.md
- cluster_sql_config.xml
- es_100k_setting.json
- es_cris_setting.json
- es_mimic_setting.json
- es_setting.json
- sample_dbcnn.json
- sem_idx_setting.json
- semehr_elasticsearch_mapping.txt
- semehr_es6_concept_mapping.txt
- semehr_es6_patient_mappings.txt
- semehr_process_settings.json
- ICD10(top level)_UMLS.tsv
- icd10_umls.tsv
- NCBO_sparql_queries.MD
- cris_corpus_trans.json
- report_001.txt
- report_002.txt
- SemEHR_Treenode.json
- mimic_FHIR_discharge_summary_map.tsv
- 100k_hpo.json
- all_A00-N99_concepts_labels.json
- all_insts.csv
- all_insts.json
- auto_immune_gazetteer.txt
- autoimmune-concepts.json
- cardio_concepts.txt
- cardiovascular_concepts.json
- crishandler-0.1.jar
- curated_mappings.json
- exact_concpts_mappings.json
- Gazetteer for autoimmune disorders.docx
- HPO_Phenome_Model_sample.png
- hwdbutil-1.2.jar
- kconnect_annotation.sql
- mimir_queries.json
- not_mapped_disorders.json
- PatientViews.png
- Surgical_Procedures.json
- SystemArch.png
- assess_ann.py
- disjoin_results.tsv
- disjoint_results.json
- exact_concepts_mappings.json
- study_analyzer.pickle
- post_filter_rules.json
- skip_terms.json
- study_analyzer.pickle
- study_concepts.json
- all_concepts.txt
- concepts_case_control.txt
- exact_concepts_mappings.json
- grouped_autoimmune_conditions.txt
- label2concept.tsv
- manual_mapped_concepts.json
- sample_rule_config.json
- sc2closure.json
- study.json
- study_analyzer.pickle
- study_concepts.json
- all_concepts.txt
- grouped_case_conditions.txt
- label2concept.tsv
- manual_mapped_concepts.json
- sample_rule_config.json
- study.json
- study_analyzer.pickle
- study_concepts.json
- study_concepts.json
- all_concepts.txt
- COMORBIDITIES GROUPED.docx
- dyson_rule_config.json
- dyson_skip_terms.json
- post_filter_rules.json
- study.json
- study_analyzer.pickle
- study_concepts.json
- all_concepts.txt
- manual_mapped_concepts.json
- study.json
- all_concepts.txt
- labelled_concepts.txt
- exact_concepts_mappings.json
- study_analyzer.pickle
- study_options.json
- study_concepts.json
- exact_concepts_mappings.json
- post_filter_rules.json
- broken_down_mappings.json
- imparts_rule_config.json
- manual_mapped_concepts.json
- study.json
- additional_mappings.json
- additional_mappings_extended.json
- all_concepts.txt
- manual_mapped_concepts.json
- study.json
- karen_rule_config.json
- manual_mapped_concepts.json
- post_filter_rules.json
- skip_terms.json
- study.json
- all_concepts_top_priority.txt
- charlson_icd10_top_priority.json
- charlson_icd10_top_priority.tsv
- katrina_rule_config.json
- manual_mapped_concepts.json
- manual_mapped_concepts_direct.json
- manual_mapped_concepts_it1.json
- study.json
- post_filter_rules.json
- study_concepts.json
- all_concepts.txt
- exact_concepts_mappings.json
- pirathiv_rule_config.json
- pirathiv_skip_terms.json
- study.json
- study_analyzer.pickle
- working_concepts.json
- all_concepts.txt
- exact_concepts_mappings.json
- post_filter_rules.json
- study.json
- study_analyzer.pickle
- all_concepts.txt
- manual_mapped_concepts.json
- _default_rule_config.json
- allow_rules.json
- autoimmune_skip_terms.json
- cris_cutoff_filters.json
- cris_document_filters.json
- general_cris_skip_terms.json
- hypothetical_filters.json
- katrina_skip_terms.json
- negation_filters.json
- not_mention_filters.json
- osf_acroynm_filters.json
- other_experiencer_filters.json
- physical_condition_skip_terms.json
- s_abbr.json
- s_karen.json
- s_pirathiv.json
- s_skin.json
- s_sue.json
- icd10_mapping.json
- manual_mapped_concepts.json
- study.json
- post_filter_rules.json
- skin_rule_config.json
- skin_skip_terms.json
- study.json
- study_analyzer.pickle
- study_concepts.json
- study_analyzer.pickle
- study_concepts.json
- all_concepts.txt
- manual_mapped_concepts.json
- sample_rule_config.json
- study.json
- elasticsearch_curls.txt
- __init__.py
- sentence_pattern.py
- text_generaliser.py
- Screenshot_tutorial.1.3.png
- Screenshot_tutorial1.1.png
- Screenshot_tutorial1.2.png
- discharge_summary_01.txt
- discharge_summary_02.txt
- discharge_summary_03.txt
- discharge_summary_04.txt
- discharge_summary_05.txt
- discharge_summary_06.txt
- discharge_summary_07.txt
- discharge_summary_08.txt
- discharge_summary_09.txt
- discharge_summary_10.txt
- discharge_summary_11.txt
- discharge_summary_12.txt
- discharge_summary_13.txt
- discharge_summary_14.txt
- discharge_summary_15.txt
- discharge_summary_16.txt
- discharge_summary_17.txt
- discharge_summary_18.txt
- discharge_summary_19.txt
- discharge_summary_20.txt
- cohort.txt
- d2p.tsv
- semehr_settings.json
- semehr-tutorial-run-compose.yml
- semehr-tutorial1-servers-compose.yml
- delete.me
- delete.me
- readme.MD
- data.js
- bigrah_viz.html
- jquery-2.1.1.js
- jquery.json-2.3.js
- api.js
- exact_map.js
- exact_map_liver.js
- main.js
- disorder_concepts.html
- KConnect_logo_150px.png
- logo.png
- elasticsearch.jquery.js
- jquery.json-2.3.js
- sweetalert2.min.css
- sweetalert2.min.js
- api.js
- hpo-umls.js
- main.js
- SemEHR.html
- KConnect_logo_150px.png
- logo.png
- elasticsearch.jquery.js
- jquery.json-2.3.js
- sweetalert2.min.css
- sweetalert2.min.js
- api.js
- hpo-umls.js
- main.js
- subconcepts.js
- SemEHR.html
- semehr.css
- KConnect_logo_150px.png
- logo.png
- tick.png
- elasticsearch.jquery.js
- jquery.json-2.3.js
- sweetalert2.min.css
- sweetalert2.min.js
- api.js
- es.search.js
- hpo-umls.js
- main.js
- semehr.analytics.js
- semehr.entities.js
- semehr.medprofile.js
- semehr.render.js
- mimic_FHIR_discharge_summary_map.js
- log_touch.html
- SemEHR.html
- semehr.css
- KConnect_logo_150px.png
- logo.png
- tick.png
- elasticsearch.jquery.js
- jquery.json-2.3.js
- sweetalert2.min.css
- sweetalert2.min.js
- api.js
- es.search.js
- hpo-umls.js
- main.js
- semehr.analytics.js
- semehr.entities.js
- semehr.medprofile.js
- semehr.render.js
- discharge_summary.js
- mimic_FHIR_discharge_summary_map.js
- log_touch.html
- SemEHR.html
- semehr.css
- KConnect_logo_150px.png
- logo.png
- semehr.png
- tick.png
- diseae_model.js
- pheno.search.js
- bluebird.min.js
- d3.v4.min.js
- elasticsearch.jquery.js
- jquery.json-2.3.js
- jquery.min.3.1.0.js
- sweetalert2.min.css
- sweetalert2.min.js
- disease_model.js
- api.js
- es.search.js
- feedback_settings.js
- hpo-umls.js
- icd10-umls.js
- main.js
- semehr.analytics.js
- semehr.entities.js
- semehr.medprofile.js
- semehr.render.js
- discharge_summary.js
- mimic_FHIR_discharge_summary_map.js
- log_touch.html
- SemEHR.html
- jquery.json-2.3.js
- sweetalert2.min.css
- sweetalert2.min.js
- api.js
- main.js
- settings.js
- sample_results.html
- __init__.py
- Authentication.py
- __init__.py
- ann_converter.py
- ann_post_rules.py
- ann_validation.py
- autoimmune.py
- cohort_helper.py
- cohortanalysis.py
- concept_mapping.py
- concept_processing_100k.py
- doc_set_analyzer.py
- docanalysis.py
- entity_centric_es.py
- environment.yml
- gb_utils.py
- gel_util.py
- LICENSE
- mimic_indexer.py
- mimicdao.py
- ontotextapi.py
- prospector.py
- pubmed_data.py
- README.md
- semehr_processor.py
- sqldbutils.py
- study_analyzer.py
- utils.py
// repository documentation
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