PhenX CDE Schema¶
Overview¶
The PhenX CDE schema represents Common Data Elements from the PhenX Toolkit, which provides standard measures for phenotype and exposure assessment in genomic research.
Schema Details¶
ID:
https://example.org/schemas/phenx_cde
Name: PhenX_CDESchema
Version: 1.0.0
Source: PhenX Toolkit
Structure¶
Classes¶
The schema organizes PhenX measures into classes based on assessment instruments. Classes are typically named after the data dictionary version (e.g., DD_120902_finalized
).
Example Measures¶
The schema includes measures such as:
Social preference assessments
Imagination and creativity indicators
Sensory sensitivity measures
Social interaction patterns
Communication styles
Behavioral preferences
Interest patterns
Data Elements¶
Example data elements include:
Preference for doing things with others
Ability to imagine story characters
Notice of small sounds or details
Social situation comfort
Conversation abilities
Fascination with patterns, dates, or numbers
Usage¶
from linkml_runtime.utils.schemaview import SchemaView
schema = SchemaView("linkml/phenx_schema.yaml")
slots = schema.all_slots()
for slot_name in list(slots.keys())[:10]:
print(f"Slot: {slot_name}")
Files¶
Schema definition:
linkml/phenx_schema.yaml
Source data:
data/phenx-redcap/
(REDCap format)