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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "SEAGLE" in publications use:'
type: software
license: GPL-3.0-only
title: 'SEAGLE: Scalable Exact Algorithm for Large-Scale Set-Based Gene-Environment
  Interaction Tests'
version: 1.0.1
doi: 10.3389/fgene.2021.710055
identifiers:
- type: doi
  value: 10.32614/CRAN.package.SEAGLE
abstract: The explosion of biobank data offers immediate opportunities for gene-environment
  (GxE) interaction studies of complex diseases because of the large sample sizes
  and rich collection in genetic and non-genetic information. However, the extremely
  large sample size also introduces new computational challenges in GxE assessment,
  especially for set-based GxE variance component (VC) tests, a widely used strategy
  to boost overall GxE signals and to evaluate the joint GxE effect of multiple variants
  from a biologically meaningful unit (e.g., gene). We present 'SEAGLE', a Scalable
  Exact AlGorithm for Large-scale Set-based GxE tests, to permit GxE VC test scalable
  to biobank data. 'SEAGLE' employs modern matrix computations to achieve the same
  “exact” results as the original GxE VC tests, and does not impose additional assumptions
  nor relies on approximations. 'SEAGLE' can easily accommodate sample sizes in the
  order of 10^5, is implementable on standard laptops, and does not require specialized
  equipment. The accompanying manuscript for this package can be found at Chi, Ipsen,
  Hsiao, Lin, Wang, Lee, Lu, and Tzeng. (2021+) <arXiv:2105.03228>.
authors:
- family-names: Chi
  given-names: Jocelyn
  email: jocetchi@gmail.com
- family-names: Ipsen
  given-names: Ilse
  email: ipsen@ncsu.edu
- family-names: Tzeng
  given-names: Jung-Ying
  email: jytzeng@ncsu.edu
preferred-citation:
  type: article
  title: 'SEAGLE: A Scalable Exact Algorithm for Large-Scale Set-based GxE Tests in
    Biobank Data'
  authors:
  - family-names: Chi
    given-names: Jocelyn T.
  - family-names: Ipsen
    given-names: Ilse C. F.
  - family-names: Hsiao
    given-names: Tzu-Hung
  - family-names: Lin
    given-names: Ching-Heng
  - family-names: Wang
    given-names: Li-San
  - family-names: Lee
    given-names: Wan-Ping
  - family-names: Lu
    given-names: Tzu-Pin
  - family-names: Tzeng
    given-names: Jung-Ying
    email: jytzeng@ncsu.edu
  journal: Frontiers in Genetics, section Statistical Genetics and Methodology
  year: '2021'
  volume: '12'
  doi: 10.3389/fgene.2021.710055
  issn: 1664-8021
  url: https://www.frontiersin.org/articles/10.3389/fgene.2021.710055/full
  start: '1878'
repository: https://jocelynchi.r-universe.dev
repository-code: https://github.com/jocelynchi/SEAGLE
commit: ee5d2a5d15cce39c295fa30532771556ec85230e
url: https://github.com/jocelynchi/SEAGLE
contact:
- family-names: Chi
  given-names: Jocelyn
  email: jocetchi@gmail.com