endoreg-db 0.8.4.4__py3-none-any.whl → 0.8.8.0__py3-none-any.whl

endoreg_db/data/_examples/finding_intervention/endoscopy_colonoscopy.yaml

@@ -0,0 +1,168 @@
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_polypectomy_cold_snare
+    description:
+      Cold snare polypectomy is a technique used to remove small polyps
+      from the colon. It is performed using a snare wire loop that is passed through
+      the colonoscope and used to remove the polyp by cutting it off at the base.
+      The procedure is usually done without the need for sedation and is considered
+      to be a safe and effective way to remove small polyps from the colon.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values:
+      - hemoglobin
+      - platelets
+      - international_normalized_ratio
+    contraindications:
+      - anticoagulation-therapeutic
+      - thrombocytopenia-severe
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_polypectomy_hot_snare
+    description:
+      Hot snare polypectomy is a technique used to remove small polyps
+      from the colon. It is performed using a snare wire loop that is passed through
+      the colonoscope and used to remove the polyp by cutting it off at the base.
+      The procedure is usually done without the need for sedation and is considered
+      to be a safe and effective way to remove small polyps from the colon.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values:
+      - hemoglobin
+      - platelets
+      - international_normalized_ratio
+    contraindications:
+      - anticoagulation-therapeutic
+      - thrombocytopenia-severe
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_injection_liftup
+    description:
+      Lift-up injection is a technique used to lift up a lesion in the
+      colon. It is performed by injecting a solution under the lesion to create a
+      cushion of fluid that lifts the lesion away from the colon wall. This allows
+      the lesion to be removed more easily and reduces the risk of complications during
+      the procedure.
+    intervention_types:
+      - diagnostic
+      - invasive
+    required_lab_values:
+      - hemoglobin
+      - platelets
+      - international_normalized_ratio
+    contraindications: []
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_injection_vasoactive
+    description:
+      Vasoactive injection is a technique used to reduce bleeding from
+      a lesion in the colon. It is performed by injecting a solution into the lesion
+      that causes the blood vessels to constrict, reducing the flow of blood to the
+      area. This can help to stop bleeding and make it easier to remove the lesion
+      during the procedure.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values: []
+    contraindications: []
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_biopsy
+    description:
+      Biopsy is a technique used to take a small sample of tissue from
+      a lesion in the colon. It is performed by inserting a small instrument through
+      the colonoscope and removing a small piece of tissue from the lesion. The tissue
+      sample is then sent to a laboratory for analysis to determine if the lesion
+      is cancerous or benign.
+    intervention_types:
+      - diagnostic
+      - invasive
+    required_lab_values: []
+    contraindications:
+      - anticoagulation-therapeutic
+      - thrombocytopenia-severe
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_emr
+    description:
+      Endoscopic mucosal resection (EMR) is a technique used to remove
+      large polyps or early-stage cancers from the colon. It is performed by injecting
+      a solution under the lesion to create a cushion of fluid that lifts the lesion
+      away from the colon wall. A snare wire loop is then used to remove the lesion
+      by cutting it off at the base. The procedure is usually done under sedation
+      and is considered to be a safe and effective way to remove large polyps or early-stage
+      cancers from the colon.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values:
+      - hemoglobin
+      - platelets
+      - international_normalized_ratio
+    contraindications:
+      - anticoagulation-therapeutic
+      - thrombocytopenia-severe
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_esd
+    description:
+      Endoscopic submucosal dissection (ESD) is a technique used to remove
+      large polyps or early-stage cancers from the colon. It is performed by injecting
+      a solution under the lesion to create a cushion of fluid that lifts the lesion
+      away from the colon wall. A snare wire loop is then used to remove the lesion
+      by cutting it off at the base. The procedure is usually done under sedation
+      and is considered to be a safe and effective way to remove large polyps or early-stage
+      cancers from the colon.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values:
+      - hemoglobin
+      - platelets
+      - international_normalized_ratio
+    contraindications:
+      - anticoagulation-therapeutic
+      - thrombocytopenia-severe
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_clip
+    description:
+      Clip closure is a technique used to close a defect in the colon wall
+      after a polyp has been removed. It is performed by placing a small metal clip
+      over the defect to seal it and prevent bleeding or perforation. The clip is
+      left in place until the defect has healed, usually within a few days.
+    intervention_types:
+      - therapeutic
+      - invasive
+      - foreign_body
+    required_lab_values: []
+    contraindications: []
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_over_the_scope_clip
+    description:
+      Over-the-scope clip (OTSC) is a clipping system used to close defects
+      in the GI tract.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values: []
+    contraindications: []
+- model: endoreg_db.finding_intervention
+  fields:
+    name: colon_lesion_eftr
+    description:
+      Endoscopic full-thickness resection (EFTR) is a technique used to
+      remove lesions in the colon.
+    intervention_types:
+      - therapeutic
+      - invasive
+    required_lab_values:
+      - hemoglobin
+      - platelets
+      - international_normalized_ratio
+    contraindications:
+      - anticoagulation-therapeutic
+      - thrombocytopenia-severe

endoreg_db/data/_examples/finding_intervention/endoscopy_egd.yaml

@@ -0,0 +1,128 @@
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_biopsy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_hp_biopsy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_injection_vasoactive
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_clip
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_over_the_scope_clip
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_varice_band_ligation
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_varice_sclerotherapy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_argon_plasma_coagulation
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_percutaneous_gastroenterostomy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_percutaneous_jejunostomy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_clip
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_varicosis_band_ligation
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_varicosis_sclerotherapy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_injection_vasoactive
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_injection_varicosis
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_polypectomy_cold_snare
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_polypectomy_hot_snare
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_polypectomy_forceps
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_injection_liftup
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_emr
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_esd
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_eftr
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_poem
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_stepwise_biopsy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_esophagus_injection_botox
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_stenosis_dilation
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_stenosis_bougie
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_stenosis_balloon
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_stenosis_stent
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_radiofrequency_ablation
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_lesion_cryotherapy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: egd_stenosis_laser
+    # ...existing code...

endoreg_db/data/_examples/finding_intervention/endoscopy_ercp.yaml

@@ -0,0 +1,32 @@
+- model: endoreg_db.finding_intervention
+  fields:
+    name: ercp
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: ercp_sphincterotomy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: ercp_stent
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: ercp_extraction
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: ercp_biopsy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: erc
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: erp
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: ercp_radiofrequency_ablation
+    # ...existing code...

endoreg_db/data/_examples/finding_intervention/endoscopy_eus_lower.yaml

@@ -0,0 +1,9 @@
+# (currently no interventions)
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_lower_gi_solid_lesion_fna
+
+# endosonography_lower_gi_lymph_node_fna
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_lower_gi_lymph_node_fna

endoreg_db/data/_examples/finding_intervention/endoscopy_eus_upper.yaml

@@ -0,0 +1,36 @@
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_solid_lesion_fna
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_cyst_fna
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_pseudocyst_fna
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_biliary_drainage
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_pancreatic_drainage
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_cyst_gastrostomy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_pancreaticogastrostomy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_cholangioduodenostomy
+    # ...existing code...
+- model: endoreg_db.finding_intervention
+  fields:
+    name: endosonography_upper_gi_pancreaticoduodenostomy
+    # ...existing code...

endoreg_db/data/_examples/finding_intervention_type/endoscopy.yaml

@@ -0,0 +1,15 @@
+- model: endoreg_db.finding_intervention_type
+  fields:
+    name: "therapeutic"
+
+- model: endoreg_db.finding_intervention_type
+  fields:
+    name: "invasive"
+
+- model: endoreg_db.finding_intervention_type
+  fields:
+    name: "diagnostic"
+
+- model: endoreg_db.finding_intervention_type
+  fields:
+    name: "foreign_body"

endoreg_db/data/_examples/finding_type/data.yaml

@@ -0,0 +1,43 @@
+- model: endoreg_db.finding_type
+  fields:
+    name: "macroscopic"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "iatrogenic"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "postinterventional_immediate"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "postinterventional_delayed"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "bleeding"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "endoscopy_baseline"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "medication_related"
+    
+- model: endoreg_db.finding_type
+  fields:
+    name: "anatomy"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "anatomy_colon"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "summary"
+
+- model: endoreg_db.finding_type
+  fields:
+    name: "complication"

endoreg_db/data/_examples/requirement/age.yaml

@@ -0,0 +1,26 @@
+# patient_age_gte_18
+- model: endoreg_db.requirement
+  fields:
+    name: "patient_age_gte_18"
+    name_de: "Patientenalter >= 18 Jahre"
+    name_en: "Patient age >= 18 years"
+    description: "This requirement is used to indicate that the patient must be at least 18 years old."
+    requirement_types:
+      - "patient"
+    operators:
+      - age_gte
+    numeric_value: 18
+
+
+- model: endoreg_db.requirement
+  fields:
+    name: "patient_age_lte_100"
+    name_de: "Patientenalter <= 100 Jahre"
+    name_en: "Patient age <= 100 years"
+    description: "This requirement is used to indicate that the patient must be at most 100 years old."
+    requirement_types:
+      - "patient"
+    operators:
+      - age_lte
+    numeric_value: 100
+    

endoreg_db/data/_examples/requirement/colonoscopy_baseline_austria.yaml

@@ -0,0 +1,45 @@
+- model: endoreg_db.requirement
+  fields:
+    name: "colonoscopy_austria_screening_bowel_prep"
+    requirement_types:
+      - "patient_examination"
+    operators:
+      - "models_match_any"
+    finding_classifications:
+      - "bowel_prep_screening_austria"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "colonoscopy_austria_screening_sedation"
+    requirement_types:
+      - "patient_examination"
+    operators:
+      - "models_match_any"
+    finding_classifications:
+      - "sedation_performed"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "colonoscopy_austria_screening_examination_cecum_visualized"
+    requirement_types:
+      - "patient_finding"
+    operators:
+      - "models_match_all"
+    findings:
+      - "cecum"
+    finding_classifications: [
+      "visualized"
+    ]
+    finding_classification_choices: [
+      "yes"
+    ]
+
+- model: endoreg_db.requirement
+  fields:
+    name: "colonoscopy_austria_screening_examination_reason_incomplete"
+    requirement_types:
+      - "patient_examination"
+    operators:
+      - "models_match_all"
+    finding_classifications:
+      - "colonoscopy_not_complete_reason"

endoreg_db/data/_examples/requirement/disease_cardiovascular.yaml

@@ -0,0 +1,79 @@
+# KHK
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_coronary_artery_disease"
+    name_de: "Koronare Gefäßerkrankung"
+    name_en: "Coronary artery disease"
+    description: "Coronary artery disease"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "coronary_artery_disease"
+
+# Hypertension
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_hypertension"
+    name_de: "Arterielle Hypertonie"
+    name_en: "Hypertension"
+    description: "Hypertension"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "hypertension"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_congestive_heart_failure"
+    name_de: "Chron. Herzinsuffizienz"
+    name_en: "Congestive heart failure"
+    description: "Congestive heart failure"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "congestive_heart_failure"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_diabetes_mellitus_I"
+    name_de: "Diabetes mellitus Typ I"
+    name_en: "Diabetes mellitus type I"
+    description: "Diabetes mellitus type I"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "diabetes_mellitus_I"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_diabetes_mellitus_II"
+    name_de: "Diabetes mellitus Typ II"
+    name_en: "Diabetes mellitus type II"
+    description: "Diabetes mellitus type II"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "diabetes_mellitus_II"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_non_valvular_atrial_fibrillation"
+    name_de: "Nicht valvuläres Vorhofflimmern"
+    name_en: "Non valvular atrial fibrillation"
+    description: "Non valvular atrial fibrillation"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "non_valvular_atrial_fibrillation"

endoreg_db/data/_examples/requirement/disease_classification_choice_cardiovascular.yaml

@@ -0,0 +1,41 @@
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_classification_choice_is_coronary_artery_disease_1_vessel"
+    name_de: "Koronare Gefäßerkrankung (1-Gefäß-Erkrankung)"
+    name_en: "Coronary artery disease (1-vessel disease)"
+    description: "Coronary artery disease (1-vessel disease)"
+    requirement_types:
+      - "patient"
+      - "patient_disease"
+    operators:
+      - models_match_all
+    disease_classification_choices:
+      - "khk_1_ge"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_classification_choice_is_coronary_artery_disease_2_vessel"
+    name_de: "Koronare Gefäßerkrankung (2-Gefäß-Erkrankung)"
+    name_en: "Coronary artery disease (2-vessel disease)"
+    description: "Coronary artery disease (2-vessel disease)"
+    requirement_types:
+      - "patient"
+      - "patient_disease"
+    operators:
+      - models_match_all
+    disease_classification_choices:
+      - "khk_2_ge"
+
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_classification_choice_is_coronary_artery_disease_3_vessel"
+    name_de: "Koronare Gefäßerkrankung (3-Gefäß-Erkrankung)"
+    name_en: "Coronary artery disease (3-vessel disease)"
+    description: "Coronary artery disease (3-vessel disease)"
+    requirement_types:
+      - "patient"
+      - "patient_disease"
+    operators:
+      - models_match_all
+    disease_classification_choices:
+      - "khk_3_ge"

endoreg_db/data/_examples/requirement/disease_hepatology.yaml

@@ -0,0 +1,12 @@
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_liver_cirrhosis"
+    name_de: "Erkrankung Leberzirrhose"
+    name_en: "Disease Liver Cirrhosis"
+    description: "Disease Liver Cirrhosis"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "liver_cirrhosis"

endoreg_db/data/_examples/requirement/disease_misc.yaml

@@ -0,0 +1,12 @@
+- model: endoreg_db.requirement
+  fields:
+    name: "disease_is_malignoma_unspecified"
+    name_de: "Malignom, nicht näher bezeichnet"
+    name_en: "Malignoma, unspecified"
+    description: "Malignoma, unspecified"
+    requirement_types:
+      - "patient"
+    operators:
+      - models_match_all
+    diseases:
+      - "disease_is_malignoma_unspecified"