Python API¶

This is the API documentation for VariantSpark, and provides detailed information on the Python programming interface.

The code below illustrates the basic use of variant-spark:

from varspark import VariantsContext
from pyspark.sql import SparkSession

spark = SparkSession.builder\
    .appName("HipsterIndex") \
    .getOrCreate()

vs = VariantsContext(spark)
features = vs.import_vcf(VCF_FILE)
labels = vs.load_label(LABEL_FILE, LABEL_NAME)
model  = features.importance_analysis(labels, mtry_fraction = 0.1, seed = 13, n_trees = 200)
print("Oob = %s" % model.oob_error())

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