Category: Customer Solutions

Complicated multi-step workflows can be challenging to deploy, especially when using a variety of high-compute resources. Covalent is an open-source orchestration tool that streamlines the deployment of distributed workloads on AWS resources. In this post, we outline key concepts in Covalent and develop a machine learning workflow for AWS Batch in just a handful of steps.

In this post, AWS Professional Services highlights how they helped data scientists from Amazon Logistics rearchitect their algorithm for improving the efficiency of their supply-chain by making better planning decisions. Leveraging best practices for deploying scalable HPC applications on AWS, the teams saw a 4X improvement in run time.

In this blog, we provide a walkthrough of running Illumina DRAGEN v4.0 genomic analysis pipelines on AWS, showing accuracy and efficiency, copy number analysis, structural variants, SMN callers, repeat expansion detection, and pharmacogenomics insights for complex genes. We also highlight some benchmarking results for runtime, cost, and concordance from the Illumina DRAGEN DNA sequencing pipeline.

As a part of AWS’s “Digital Technologies for a Circular Economy” initiative, we joined forces with Accenture, Intel and Good Chemistry to massively scale quantum chemistry simulations. This is the first and most complex step to discovering new pathways for PFAS destruction for a cleaner world.

In this blog post, we benchmark the performance of Sentieon’s DNAseq and DNAscope pipelines using publicly available genomics datasets on AWS. You will gain an understanding of the runtime, cost, and accuracy performance of these germline variant calling pipelines across a wide range of Amazon EC2 instances.

Calling budding bioinformaticians! If you learn through hands-on practicals and walkthroughs, AWS and GIS have developed training and resources to help you increase the scale and productivity of your research using the AWS cloud.

In this blog, we showcase the first version of Open Omics and benchmark three applications that are used in processing NGS data – sequence alignment tools BWA-MEM, minimap2, and single cell ATAC-Seq on Xeon-based Amazon Elastic Compute Cloud (Amazon EC2) Instances.

In this blog post, we discuss the AWS solution that Amazon’s construction division used to conduct large-scale CFD fire simulations as part of their Fire Strategy solutions to demonstrate safety and fire mitigation strategies. We outline the five key steps taken that resulted in simulation times that were 15-20x faster than previous on-premises architectures, reducing the time to complete from up to twenty-one days to less than one day.

Ampersand is a data-driven TV advertising technology company that provides aggregated TV audience impression insights and planning on 42 million households, in every media market, across more than 165 networks and apps and in all dayparts (broadcast day segments). The Ampersand Data Science team estimated that building their statistical models would require up to 600,000 physical CPU hours to run, which would not be feasible without using a massively parallel and large-scale architecture in the cloud. AWS Batch enabled Ampersand to compress their time of computation over 500x through massive scaling while optimizing their costs using Amazon EC2 Spot. In this blog post, we will provide an overview of how Ampersand built their TV audience impressions (“impressions”) models at scale on AWS, review the architecture they have been using, and discuss optimizations they conducted to run their workload efficiently on AWS Batch.

Somatic variants are genetic alterations which are not inherited but acquired during one’s lifespan, for example those that are present in cancer tumors. In this post, we will demonstrate how to perform somatic variant calling from matched tumor and normal genome sequence data, as well as tumor-only whole genome and whole exome datasets using an NVIDIA GPU-accelerated Parabricks pipeline, and compare the results with baseline CPU-based workflows.