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Information

The Phenopacket v2 schema enforces the presence of specific properties to achieve successful validation. We display in parenthesis the fields that are employed to guarantee conformity.

Version 0.25

Terms

id

BFF JSON path PXF JSON path
(UNIQUE ID) id

subject

BFF JSON path PXF JSON path
id subject.id
(ALIVE) subject.vitalStatus
sex.label subject.sex
info.dateOfBirth subject.dateOfBirth
karyotypicSex subject.karyotypicSex

phenotypicFeatures

BFF JSON path PXF JSON path
phenotypicFeatures.featureType phenotypicFeatures.type
phenotypicFeatures.excluded phenotypicFeatures.excluded

measurements

BFF JSON path PXF JSON path
measures.assayCode measurements.assay
measures.measurementValue measurements.value
measures.measurementValue.typedQuantities.quantityType measurements.complexValue.typedQuantities.type

biosamples

BFF JSON path PXF JSON path
info.biosamples biosamples

interpretations

BFF JSON path PXF JSON path
info.interpretations interpretations

diseases

BFF JSON path PXF JSON path
diseases.diseaseCode diseases.term
diseases.ageOfOnset diseases.onset

medicalActions

BFF JSON path PXF JSON path
interventionsOrProcedures.procedureCode medicalActions.procedure.code
interventionsOrProcedures.ageAtProcedure medicalActions.procedure.performed
treatments.treatmentCode medicalActions.treatment.agent

files

NA

metaData

BFF JSON path PXF JSON path
info.metaData metaData

exposures (not-listed in PXF documentation)

BFF JSON path PXF JSON path
exposures.exposureCode exposures.type
exposures.date exposures.occurrence.timestamp
last change 2023-03-09 by Manuel Rueda