onconova.research.schemas.dataset

DataResource module-attribute

DatasetFiltersBase module-attribute

partial_schemas module-attribute

Dataset

Bases: DatasetCreate, MetadataMixin

cohortsIds class-attribute instance-attribute

lastExport class-attribute instance-attribute

totalExports class-attribute instance-attribute

DatasetCreate

Bases: BaseSchema

__orm_model__ class-attribute instance-attribute

externalSource class-attribute instance-attribute

externalSourceId class-attribute instance-attribute

name class-attribute instance-attribute

projectId class-attribute instance-attribute

rules class-attribute instance-attribute

summary class-attribute instance-attribute

DatasetFilters

Bases: DatasetFiltersBase

createdBy class-attribute instance-attribute

filter_createdBy(value)

Apply a filter for the creator's username.

Source code in onconova/research/schemas/dataset.py

def filter_createdBy(self, value: str) -> Q:
    """
    Apply a filter for the creator's username.
    """
    return Q(created_by=self.createdBy) if value is not None else Q()

DatasetRule

Bases: Schema

Schema representing a rule applied to a dataset resource.

Attributes:

Name	Type	Description
resource	DataResource	The oncology resource this rule references.
field	str	Dot-separated path of the field within the resource (e.g. 'medications.drug').
transform	Nullable[str | Tuple[str, Any]]	Nullable transform expression or mapping applied to the field's value.

field class-attribute instance-attribute

resource class-attribute instance-attribute

transform class-attribute instance-attribute

ExportedPatientCaseDataset

Bases: ExportMetadata

dataset class-attribute instance-attribute

PatientCaseDataset

Bases: partial_schemas['PatientCase']

PatientCaseDataset schema representing a comprehensive dataset for a patient case in oncological research.

Attributes:

Name	Type	Description
pseudoidentifier	str	Unique pseudoidentifier for the patient case.
neoplasticEntities	Optional[List[NeoplasticEntity]]	List of neoplastic entities associated with the case.
tnmStagings	Optional[List[TNMStaging]]	List of TNM staging resources.
figoStagings	Optional[List[TNMStaging]]	List of FIGO staging resources.
binetStagings	Optional[List[BinetStaging]]	List of Binet staging resources.
raiStagings	Optional[List[RaiStaging]]	List of Rai staging resources.
breslowStagings	Optional[List[BreslowDepth]]	List of Breslow depth resources.
clarkStagings	Optional[List[ClarkStaging]]	List of Clark staging resources.
issStagings	Optional[List[ISSStaging]]	List of ISS staging resources.
rissStagings	Optional[List[RISSStaging]]	List of RISS staging resources.
inssStagings	Optional[List[INSSStage]]	List of INSS staging resources.
inrgssStagings	Optional[List[INRGSSStage]]	List of INRGSS staging resources.
gleasonStagings	Optional[List[GleasonGrade]]	List of Gleason grade resources.
rhabdomyosarcomaGroups	Optional[List[RhabdomyosarcomaClinicalGroup]]	List of rhabdomyosarcoma clinical group resources.
wilmsStagings	Optional[List[WilmsStage]]	List of Wilms staging resources.
lymphomaStagings	Optional[List[LymphomaStaging]]	List of lymphoma staging resources.
tumorMarkers	Optional[List[TumorMarker]]	List of tumor marker resources.
riskAssessments	Optional[List[RiskAssessment]]	List of risk assessment resources.
therapyLines	Optional[List[TherapyLine]]	List of therapy line resources.
systemicTherapies	Optional[List[SystemicTherapy]]	List of systemic therapy resources.
surgeries	Optional[List[Surgery]]	List of surgery resources.
radiotherapies	Optional[List[Radiotherapy]]	List of radiotherapy resources.
adverseEvents	Optional[List[AdverseEvent]]	List of adverse event resources.
treatmentResponses	Optional[List[TreatmentResponse]]	List of treatment response resources.
performanceStatus	Optional[List[PerformanceStatus]]	List of performance status resources.
comorbidities	Optional[List[ComorbiditiesAssessment]]	List of comorbidities assessment resources.
genomicVariants	Optional[List[GenomicVariant]]	List of genomic variant resources.
tumorMutationalBurdens	Optional[List[TumorMutationalBurden]]	List of tumor mutational burden resources.
microsatelliteInstabilities	Optional[List[MicrosatelliteInstability]]	List of microsatellite instability resources.
lossesOfHeterozygosity	Optional[List[LossOfHeterozygosity]]	List of loss of heterozygosity resources.
homologousRecombinationDeficiencies	Optional[List[HomologousRecombinationDeficiency]]	List of homologous recombination deficiency resources.
tumorNeoantigenBurdens	Optional[List[TumorNeoantigenBurden]]	List of tumor neoantigen burden resources.
aneuploidScores	Optional[List[AneuploidScore]]	List of aneuploid score resources.
vitals	Optional[List[Vitals]]	List of vital sign resources.
lifestyles	Optional[List[Lifestyle]]	List of lifestyle resources.
familyHistory	Optional[List[FamilyHistory]]	List of family history resources.
unspecifiedTumorBoards	Optional[List[UnspecifiedTumorBoard]]	List of unspecified tumor board resources.
molecularTumorBoards	Optional[List[UnspecifiedTumorBoard]]	List of molecular tumor board resources.

Note

All attributes are nullable and may contain lists of corresponding schema resources.

adverseEvents class-attribute instance-attribute

aneuploidScores class-attribute instance-attribute

binetStagings class-attribute instance-attribute

breslowStagings class-attribute instance-attribute

clarkStagings class-attribute instance-attribute

comorbidities class-attribute instance-attribute

familyHistory class-attribute instance-attribute

figoStagings class-attribute instance-attribute

genomicVariants class-attribute instance-attribute

gleasonStagings class-attribute instance-attribute

homologousRecombinationDeficiencies class-attribute instance-attribute

id class-attribute instance-attribute

inrgssStagings class-attribute instance-attribute

inssStagings class-attribute instance-attribute

issStagings class-attribute instance-attribute

lifestyles class-attribute instance-attribute

lossesOfHeterozygosity class-attribute instance-attribute

lymphomaStagings class-attribute instance-attribute

microsatelliteInstabilities class-attribute instance-attribute

molecularTumorBoards class-attribute instance-attribute

neoplasticEntities class-attribute instance-attribute

performanceStatus class-attribute instance-attribute

pseudoidentifier class-attribute instance-attribute

radiotherapies class-attribute instance-attribute

raiStagings class-attribute instance-attribute

rhabdomyosarcomaGroups class-attribute instance-attribute

riskAssessments class-attribute instance-attribute

rissStagings class-attribute instance-attribute

surgeries class-attribute instance-attribute

systemicTherapies class-attribute instance-attribute

therapyLines class-attribute instance-attribute

tnmStagings class-attribute instance-attribute

treatmentResponses class-attribute instance-attribute

tumorMarkers class-attribute instance-attribute

tumorMutationalBurdens class-attribute instance-attribute

tumorNeoantigenBurdens class-attribute instance-attribute

unspecifiedTumorBoards class-attribute instance-attribute

vitals class-attribute instance-attribute

wilmsStagings class-attribute instance-attribute

2025-10-172025-10-17runner