Genomics secondary analysis use cases

Workflow automation icon
Workflow automation
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Secondary analysis
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Workflow automation

Workflow automation icon

Running genomics workflows requires manual provisioning and configurations. Workflow automation and orchestration tools from AWS, AWS Partners, and the open-source community can help accelerate research and scale compute capabilities. 

AWS solutions & guidances

Automate genomic workflows on AWS with Amazon Genomics CLI icon

Solution: Automate genomic workflows on AWS with Amazon Genomics CLI

Amazon Genomics CLI is an open source tool that provides an easy-to-use command line interface to quickly setup and run genomics workflows on AWS, enabling faster and more cost-effective population-level genetics studies, drug discovery cycles, and more.

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Genomics Secondary Analysis Using AWS Step Functions and AWS Batch icon

Solution: Genomics Secondary Analysis Using AWS Step Functions and AWS Batch

The Genomics Secondary Analysis Using AWS Step Functions and AWS Batch solution creates a scalable environment in AWS to develop, build, deploy, and run genomics secondary analysis pipelines, for example, processing raw whole genome sequences into variant calls.

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Cromwell on AWS icon

Solution: Cromwell on AWS

With Cromwell on AWS, researchers and scientists have even more flexibility in scaling genomics experiments using computing capabilities in the cloud – instead of competing for limited on-premises resources.

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Automate genomic workflows on AWS with Amazon Genomics CLI icon

Solution: NextFlow on AWS Batch

Nextflow is a reactive workflow framework and domain specific language (DSL) that enables scalable and reproducible scientific workflows using software containers.

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Fred Hutchinson Cancer Research Center logo

With AWS, the Fred Hutch Microbiome Research Initiative reduces 7 years of compute time to 7 days with AWS.

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Gritstone Oncology logo

Gritstone Oncology uses AWS and a Nextflow-driven shared job queue to dispatch jobs and handle data flow.

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Helix logo

Helix uses BaseSpace Sequence Hub, a genomic data analysis platform from Illumina, to power its work.

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DNAnexus logo

"Top diagnostics and biopharma companies leverage DNAnexus on AWS to automate recurrent data intensive tasks for speed and accuracy. As a result, these companies achieve dramatic reduction in their R&D, speeding up pipeline development from weeks to hours."

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Seqera Labs logo

"Seqera Labs and AWS have collaborated to ensure that AWS is the environment of choice for life science workloads. Nextflow and Nextflow Tower are seamlessly integrated into AWS Batch for elastic compute, EKS for seamless deployment, and AWS file and object storage services for cost-effective and performant data storage."

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Seven Bridges logo

"The Seven Bridges platform and Seven Bridges analysis tools such as GRAF™ and ARIA™ rely on the flexibility and scalability of AWS to enable researchers to take advantage of massive repositories of genomic and phenotypic data — which have the potential to reveal transformative insights into the underpinnings of disease, novel therapeutic approaches and in silico disease models."

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The DRAGEN Bio-IT Platform by Illumina enables ultra-rapid analysis of Next Generation Sequencing (NGS) data for large data sets, such as whole genomes, exomes, and genes/panels. The analysis includes mapping, aligning, sorting, duplicate marking, small variant calling, and more.

Secondary analysis

Secondary analysis icon

As adoption of genomics continues to accelerate, secondary analysis is often cited as a constraint. To accelerate analysis and keep pace with increasing demand, genomics organizations leverage the scalability and cost efficiency of AWS.

AWS solutions & guidances

DRAGEN on AWS icon

Solution: DRAGEN on AWS

Illumina's Dynamic Read Analysis for Genomics (DRAGEN) on AWS enables ultra-rapid analysis of next-generation sequencing data. 

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Genomics Secondary Analysis Using AWS Step Functions and AWS Batch icon

Solution: Genomics Secondary Analysis Using AWS Step Functions and AWS Batch

The Genomics Secondary Analysis Using AWS Step Functions and AWS Batch solution creates a scalable environment in AWS to develop, build, deploy, and run genomics secondary analysis pipelines, for example, processing raw whole genome sequences into variant calls.

Learn more »
Illumina logo

The DRAGEN Bio-IT platform by Illumina provides accurate, ultra-rapid secondary analysis results. Customers can power and dramatically accelerate their analyses with DRAGEN running on Amazon EC2 F1 instances.

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Munich Leukemia Lab (MLL) logo

With AWS, Munich Leukemia Lab reduces the turnaround time to process patient genome data from 20 hours to 3 hours, helping accelerate research and improve diagnosis of leukemia.

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Ancestry logo

Ancestry relies on Amazon EFS to enable multiple scientists to perform genomics research, scale compute and storage up or down, and onboard scientists faster.

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Illumina logo

"Accuracy and speed are essential to unlocking the power of the human genome. The DRAGEN Bio-IT platform by Illumina, provides accurate, ultra-rapid secondary analysis results. Customers can power and dramatically accelerate their analyses with DRAGEN running on AWS. "

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NVIDIA logo

"NVIDIA Clara Parabricks Pipelines is a GPU-accelerated compute framework, supporting genomic applications that span DNA to RNA. The acceleration of Parabricks coupled to the scalability of AWS is powering the genomics industry to perform projects faster, more cost effectively, and letting researchers identify more genetic variants in their data."

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Seven Bridges logo

"The Seven Bridges platform and Seven Bridges analysis tools such as GRAF™ and ARIA™ rely on the flexibility and scalability of AWS to enable researchers to take advantage of massive repositories of genomic and phenotypic data — which have the potential to reveal transformative insights into the underpinnings of disease, novel therapeutic approaches and in silico disease models."

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Analyze your whole genome, exome, and panel next generation sequencing data quickly with high accuracy using GPU-accelerated NVIDIA Clara Parabricks for genomic analysis on AWS. Clara Parabricks on AWS brings a suite of purpose-built tools to support end-to-end genomics workflows, improving data liquidity, security and analytical bottlenecks. The acceleration of Parabricks coupled with the scalability of AWS is helping scientists reduce analysis cost, deliver faster time to results, and scale data processing.

Optimizing Secondary Analysis Compute Costs

Learn how to optimize secondary analysis compute costs using Amazon Elastic Compute Cloud (EC2), spot instances, and AWS Batch.

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