Sophia Genetics

Sophia Genetics, reducing its Processing Time From Days to Minutes with Kestra

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Introduction

Sophia Genetics, a leading company in the genomic sequence analysis space, has been pushing the boundaries of personalized healthcare. To streamline its bioinformatics operations, Sophia Genetics has embraced Kestra, as its orchestration tool, to work alongside other technologies like Azure Batch.

Technology Stack

Sophia Genetics employs a sophisticated technology stack to handle its complex genomic analysis needs:

  • Azure Batch: Manages cloud-based job scheduling and resource allocation.
  • Custom Algorithms and Software: For data preprocessing and sequence alignment.
  • Variant Calling Engines: Specialized tools for identifying and filtering variants.
  • Annotation Databases: To annotate genomic variants with functional and clinical implications.
  • Kestra: Orchestrates the entire bioinformatics workflow, ensuring seamless task executions.

The Challenge

Before employing Kestra, Sophia Genetics faced multiple challenges in its bioinformatics pipeline. They struggled with problems related to resource allocation, workflow orchestration, and data chunking. The existing tools were either not user-friendly or lacked integration capabilities.

Why Kestra?

Sophia Genetics chose Kestra for its:

  • Integration Capabilities: Smooth integration with Azure Batch and other bioinformatics tools.
  • User-Friendly Interface: Making it easy for bioinformaticians to define workflows.
  • Scalability: Can efficiently handle a large number of workflows in parallel.
  • Flexibility: Enables real-time adjustments in workflow steps and resource allocation.

The Outcome

With the implementation of Kestra, Sophia Genetics was able to:

  • Simplify Workflow Management: Managing a large panel of workflows became easier.
  • Automate Data Chunking: Kestra automated the 'divide-and-conquer' strategy in data processing.
  • Streamline Resource Allocation: Efficient allocation of cloud-based resources through Azure Batch.
  • Improve Productivity: Over 100 data scientists have experienced a significant productivity boost.

What's Good About Kestra

Kestra has proven to be indispensable in enhancing the efficiency of Sophia Genetics' bioinformatics operations. Its capabilities in workflow orchestration, seamless integration with Azure Batch, and user-friendly interface have made it a preferred choice for solving the company's complex challenges.

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