Open Targets Genetics Documentation
  • Introduction
  • Release notes
  • Change log
  • FAQs
  • Future Plans
  • Licence
  • Citation
  • Terms of Use
  • Our Approach
    • Overview
    • Assigning Variants to Disease (V2D)
    • Assigning Variants to Genes (V2G)
    • Prioritising causal genes at GWAS loci (L2G)
    • Colocalisation analysis
    • Data Sources
      • Genetic Variation
        • FinnGen
      • Molecular Traits
        • Splice QTLs
      • Others
  • How To Use Open Targets Genetics starting with
    • A Gene
    • A Study (Trait)
    • Multiple Studies
    • A Variant
    • Introducing the Locus Plot
  • Technical Pipeline
    • What Technologies Do We Use?
    • GitHub Repositories
    • Pipeline schematic overview
  • Meetings
    • ESHG Workshop 2019
    • ASHG Workshop 2018
  • Data access
    • Data Download
    • GraphQL API
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  1. Technical Pipeline

GitHub Repositories

Input data workflows

  • https://github.com/opentargets/genetics-v2d-data: Variant to disease dataset workflows

  • https://github.com/opentargets/genetics-v2g-data: Workflows to generate cis-regulatory datasets used for variant-to-gene (V2G) assignment

  • https://github.com/opentargets/genetics-sumstat-data:

    Workflows for processing summary statistics file

Genetics methods

  • https://github.com/opentargets/mendelian-randomisation: Mendelian Randomisation

  • https://github.com/opentargets/genetics-l2g-scoring: L2G pipeline

  • https://github.com/opentargets/genetics-finemapping: Fine-mapping pipeline

  • https://github.com/opentargets/genetics-colocalisation: Colocalisation pipeline

  • https://github.com/opentargets/sumstat_harmoniser: Summary statistic harmoniser

Back-end

  • https://github.com/opentargets/genetics-pipe: Extract, transform, load pipeline

  • https://github.com/opentargets/genetics-backend: QC, spin VMs, load data into DBs, create LUTs

  • https://github.com/opentargets/genetics-api: GraphQL API code

Front-end

  • https://github.com/opentargets/genetics-app: web application code for Open Targets Genetics

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Last updated 1 year ago