synthea-rdf 0.1.2

Semantic web representation for the Synthea.

🕸️ SYNTHEA RDF

Semantic web representation for the Synthea^TM and CSVs to Turtle (.ttl) conversion tool.

Synthea ontology and conversion method v1.0 are done. WIP minor fixes.

:hammer: Usage

Single CSV

from from pathlib import Path
from synthea_rdf.graph import GraphBuilder

MODEL_PATH = "./synthea_ontology/synthea_ontology.ttl"
CSV_DIR = "./csv"
DEST_PATH = "./result"

builder = GraphBuilder(CSV_DIR, MODEL_PATH)
builder.convertEncounter()
builder.serialize(destination=Path(DEST_PATH)/"encounter.ttl")

Convert method list:

• convertAllergy()
• convertCarePlan()
• convertClaim()
• convertClaimTransaction()
• convertCondition()
• convertDevice()
• convertEncounter()
• convertImagingStudy()
• convertImmunization()
• convertMedication()
• convertObservation()
• convertOrganization()
• convertPatient()
• convertPayer()
• convertPayerTransition()
• convertProcedure()
• convertProvider()
• convertSupply()

All CSV

from pathlib import Path
from synthea_rdf.graph import GraphBuilder

MODEL_PATH = "./synthea_ontology/synthea_ontology.ttl"
CSV_DIR = "./csv"
DEST_PATH = "./result"

builder = GraphBuilder(CSV_DIR, MODEL_PATH)
graph = builder.build()
graph.serialize(destination=Path(DEST_PATH) / "all.ttl")

:warning: Issues

• Confusing naming convention for the following data properties:

    - syn:start
    - syn:startDate
    - syn:startDateTime
    - syn:date
    - syn:dateTime
  

• There are no Allergy and ImagingStudy data in the test dataset. Testing required with a larger dataset.

  • Test Allergy
  • Test ImagingStudy