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type: software
license: MIT
title: 'SIP: Single-Iteration Permutation for Large-Scale Biobank Data'
version: 0.1.0
doi: 10.32614/CRAN.package.SIP
abstract: A single, phenome-wide permutation of large-scale biobank data. When a large
  number of phenotypes are analyzed in parallel, a single permutation across all phenotypes
  followed by genetic association analyses of the permuted data enables estimation
  of false discovery rates (FDRs) across the phenome. These FDR estimates provide
  a significance criterion for interpreting genetic associations in a biobank context.
  For the basic permutation of unrelated samples, this package takes a sample-by-variable
  file with ID, genotypic covariates, phenotypic covariates, and phenotypes as input.
  For data with related samples, it also takes a file with sample pair-wise identity-by-descent
  information. The function outputs a permuted sample-by-variable file ready for genome-wide
  association analysis. See Annis et al. (2021) <https://doi.org/10.21203/rs.3.rs-873449/v1>
  for details.
authors:
- family-names: Annis
  given-names: Aubrey
  email: acannis@umich.edu
repository: https://acannis.r-universe.dev
repository-code: https://github.com/acannis/SIP
commit: 3fc04d1816045be0a42d3ba8b6da3cbaa571c99b
url: https://github.com/acannis/SIP
date-released: '2025-11-06'
contact:
- family-names: Annis
  given-names: Aubrey
  email: acannis@umich.edu