PyGDC

Python API for accessing Genomic Data Commons

Basic API

Cases

from pygdc import get_cases
from pygdc.filters import equals_filter

results = get_cases(
    filters=equals_filter('project.primary_site', 'Lung'), 
    fields='demographic.gender,project.disease_type', 
    max_results=50
)

Cohorts Example

Using cohorts

import pygdc

pygdc.build_cohort(
    primary_site='Lung', 
    cohort_cache_dir='cache-dir')