Single-Iteration Permutation for Large-Scale Biobank Data R package SIP version 0.1.0 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) <doi:10.21203/rs.3.rs-873449/v1> for details. Software Depends: R (>= 3.5) Imports: stats, data.table, ggplot2 Suggests: testthat (>= 3.0.0) Aubrey Annis <acannis@umich.edu> Comprehensive R Archive Network (CRAN) Aubrey Annis [aut, cre] MIT + file LICENSE (https://CRAN.R-project.org/package=SIP/LICENSE) 2025-12-09 application/tgz https://CRAN.R-project.org/package=SIP doi:10.32614/CRAN.package.SIP