articleBioinformaticsJul 19, 2019GREEN OA

Genetic association testing using the GENESIS R/Bioconductor package

SMStephanie M. GogartenTSTamar SoferHCHan ChenCYChaoyu YuJAJennifer A. Brody

University of Washington · Brigham and Women's Hospital · +3 more institutions

PubMed
Indexed incrossrefdoajpubmed

Abstract

SUMMARY: The Genomic Data Storage (GDS) format provides efficient storage and retrieval of genotypes measured by microarrays and sequencing. We developed GENESIS to perform various single- and aggregate-variant association tests using genotype data stored in GDS format. GENESIS implements highly flexible mixed models, allowing for different link functions, multiple variance components and phenotypic heteroskedasticity. GENESIS integrates cohesively with other R/Bioconductor packages to build a complete genomic analysis workflow entirely within the R environment. AVAILABILITY AND IMPLEMENTATION: https://bioconductor.org/packages/GENESIS; vignettes included. SUPPLEMENTARY INFORMATION: Supplementary data are…

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491
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Authors

8

Topics & keywords

Topics
Keywords
  • Bioconductor
  • R package
  • Computer science
  • Association (psychology)
  • Association test
  • Computational biology
  • Genetic association
  • Biology
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