Genomics guide

Important

This documentation has been retired and might not be updated. The products, services, or technologies mentioned in this content are no longer supported.

The Databricks Genomics runtime has been deprecated. For open source equivalents, see repos for genomics-pipelines and Glow. Bioinformatics libraries that were part of the runtime have been released as a Docker container, which can be pulled from the ProjectGlow Dockerhub page.

For more information about the Databricks Runtime deprecation policy and schedule, see All supported Databricks Runtime releases.

To learn how to get started with libraries that use Apache Spark for genomics on Databricks, see documentation for the following open source tools:

• ADAM

• Secondary analysis pipelines

• Hail

• Glow

For legacy documentation on working with some of these tools on Databricks, see:

• Tertiary analytics with Apache Spark
  • ADAM
  • Hail
  • Glow

The Databricks Runtime for Genomics offered secondary analysis pipelines parallelized with Apache Spark.

• Legacy documentation on these features and example notebooks can be found in the following articles:

  • Secondary analysis
    • DNASeq pipeline
    • RNASeq pipeline
    • Tumor/Normal pipeline
    • Variant annotation methods
  • Joint genotyping
    • Joint genotyping pipeline
  • Databricks Runtime for Genomics (Deprecated)
    • What’s in Databricks Runtime for Genomics?
    • Requirements
    • Create a cluster using Databricks Runtime for Genomics