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@va-big-data-genomics

VA Big Data Genomics Group

Using cloud technologies to manage, characterize, and analyze large scale whole genome sequencing data generated by the VA Million Veteran Program
README.md

VA Big Data Genomics Group

The VA Big Data Genomics group is a collaboration between the Stanford Genetics Bioinformatics Service Center (GBSC), Palo Alto Veterans Institute for Research (PAVIR), and Department of Veterans Affairs. Our group uses cloud technologies to identify and implement effective practices for managing, characterizing, and analyzing large genomic datasets. We are currently focussed on variant calling, aggregation, quality control, and distribution of 100,000+ genomes sequenced as part of the VA Million Veteran Program.

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  1. general-practices general-practices Public

    Documentation of effective practices used in the Stanford Center for Genomics& Personalized Medicine.

    2 1

Repositories

Showing 10 of 13 repositories
  • va-big-data-genomics.github.io Public

    GitHub Pages site for VA Big Data Genomics group

    va-big-data-genomics/va-big-data-genomics.github.io’s past year of commit activity
    HTML 1 2 2 0 Updated Jan 16, 2025
  • trellis-mvp-functions Public

    Trellis serverless data management framework for variant calling of VA MVP whole-genome sequencing data.

    va-big-data-genomics/trellis-mvp-functions’s past year of commit activity
    Python 6 1 15 2 Updated Jun 18, 2024
  • data-release-portal Public

    Source for web portal describing data releases published by the Stanford Data-as-a-Service (DaaS) team.

    va-big-data-genomics/data-release-portal’s past year of commit activity
    0 MIT 0 2 0 Updated Aug 30, 2023
  • trellisdata Public

    Python package with classes and methods used in implementing a Trellis data management system.

    va-big-data-genomics/trellisdata’s past year of commit activity
    Python 0 MIT 1 7 0 Updated Jul 5, 2023
  • trellis-mvp-data-modelling Public

    Resources uses for interacting and updating the Trellis MVP graph database model.

    va-big-data-genomics/trellis-mvp-data-modelling’s past year of commit activity
    Python 0 MIT 0 3 0 Updated May 12, 2023
  • dockerfiles Public

    Dockerfiles for creating Docker images

    va-big-data-genomics/dockerfiles’s past year of commit activity
    Roff 0 MIT 0 0 0 Updated May 8, 2023
  • general-practices Public

    Documentation of effective practices used in the Stanford Center for Genomics& Personalized Medicine.

    va-big-data-genomics/general-practices’s past year of commit activity
    2 MIT 1 2 0 Updated Mar 14, 2023
  • .github Public
    va-big-data-genomics/.github’s past year of commit activity
    0 1 0 0 Updated Jan 13, 2023
  • trellis-mvp-gatk Public

    GATK with five-dollar-genome-analysis-pipeline on GCP for MVP

    va-big-data-genomics/trellis-mvp-gatk’s past year of commit activity
    WDL 2 0 1 0 Updated Nov 1, 2022
  • trellis-mvp-sv-callers Public

    Repository of structural variant calling resources used by Trellis to analyze whole-genome sequencing data generated as part of the Department of Veterans Affairs Million Veteran Program (MVP)

    va-big-data-genomics/trellis-mvp-sv-callers’s past year of commit activity
    Shell 0 0 1 1 Updated Oct 21, 2022
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