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Open data
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Deployed on AWS
This dataset holds the data needed to run a [structural variation discovery pipeline](https://github.com/broadinstitute/gatk-sv)
for Illumina short-read whole-genome sequencing (WGS) data in AWS.
Overview
This dataset holds the data needed to run a structural variation discovery pipeline for Illumina short-read whole-genome sequencing (WGS) data in AWS.
Features and programs
Open Data Sponsorship Program
This dataset is part of the Open Data Sponsorship Program, an AWS program that covers the cost of storage for publicly available high-value cloud-optimized datasets.
Pricing
This is a publicly available data set. No subscription is required.
Legal
Content disclaimer
Vendors are responsible for their product descriptions and other product content. AWS does not warrant that vendors' product descriptions or other product content are accurate, complete, reliable, current, or error-free.
Delivery details
AWS Data Exchange (ADX)
AWS Data Exchange is a service that helps AWS easily share and manage data entitlements from other organizations at scale.
Open data resources
Available with or without an AWS account.
- How to use
- To access these resources, reference the Amazon Resource Name (ARN) using the AWS Command Line Interface (CLI). Learn more
- Description
- This dataset contains, among others, the following data: <ul> * Illumina short-read whole-genome CRAMs or BAMs, aligned to hg38 with <a href="https://github.com/lh3/bwa">bwa-mem</a>. BAMs must also be indexed.<br> * Indexed GVCFs produced by GATK HaplotypeCaller, or a jointly genotyped VCF. * Family structure definitions file in <a href="https://gatk.broadinstitute.org/hc/en-us/articles/360035531972-PED-Pedigree-format">PED format</a>.<br> * Reference files from the human reference genome Hg38. </ul>
- Resource type
- S3 bucket
- Amazon Resource Name (ARN)
- arn:aws:s3:::gatk-sv-data-us-east-2
- AWS region
- us-east-2
- AWS CLI access (No AWS account required)
- aws s3 ls --no-sign-request s3://gatk-sv-data-us-east-2/
- Description
- This dataset contains, among others, the following data: <ul> * Illumina short-read whole-genome CRAMs or BAMs, aligned to hg38 with <a href="https://github.com/lh3/bwa">bwa-mem</a>. BAMs must also be indexed.<br> * Indexed GVCFs produced by GATK HaplotypeCaller, or a jointly genotyped VCF. * Family structure definitions file in <a href="https://gatk.broadinstitute.org/hc/en-us/articles/360035531972-PED-Pedigree-format">PED format</a>.<br> * Reference files from the human reference genome Hg38. </ul>
- Resource type
- S3 bucket
- Amazon Resource Name (ARN)
- arn:aws:s3:::gatk-sv-data-us-east-1
- AWS region
- us-east-1
- AWS CLI access (No AWS account required)
- aws s3 ls --no-sign-request s3://gatk-sv-data-us-east-1/
Resources
Vendor resources
Support
Contact
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How to cite
GATK Structural Variation (SV) Data was accessed on DATE from https://registry.opendata.aws/gatk-sv-data .
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