The Azure Databricks Spark SQL VCF reader requires Databricks Runtime HLS, which is in Beta. Sign up for access.
Genomics data is usually stored in specialized flat-file formats such as VCF or BGEN.
You can use Delta tables for second-latency queries, performant range-joins (similar to the single-node bioinformatics tool bedtools intersect), aggregate analyses such as calculating summary statistics, machine learning or deep learning.
We recommend ingesting VCF files into Delta tables once volumes reach >1000 samples, >10 billion genotypes or >1 terabyte.
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