Package: lantern Type: Package Title: Ancestry-Specific Rare Variant Association Analysis Version: 0.99.0 Authors@R: c( person(given = "Yu", family = "Wang", role = c("aut", "cre"), email = "ywang@mcw.com"), person(given = "Bjoernar", family = "Tuftin", role = "aut", email = "btuftin@email.unc.edu"), person(given = "Paul", family = "Auer", role = "aut", email = "pauer@mcw.edu")) Description: Ancestry-specific rare variant burden testing for admixed populations. Splits genotype dosages by local ancestry (as inferred by 'RFMix') into per-ancestry dosages, using either phased haplotypes or unphased genotypes with shrinkage toward global ancestry, and writes them to 'SeqArray' GDS files. Ancestry-stratified gene-level tests are then run with the 'SMMAT' framework of Chen et al. (2019) as implemented in 'GMMAT', and the per-ancestry p-values are combined with the Cauchy combination test of Liu and Xie (2020) . URL: https://yuw444.github.io/lantern/, https://github.com/yuw444/lantern BugReports: https://github.com/yuw444/lantern/issues SystemRequirements: bcftools (>= 1.10) (optional; faster VCF reading and BCF input) License: MIT + file LICENSE Encoding: UTF-8 Depends: R (>= 4.5.0) Imports: data.table, SeqArray, stats, utils Suggests: BiocStyle, GMMAT, knitr, rmarkdown, SeqVarTools, testthat (>= 3.0.0) VignetteBuilder: knitr biocViews: Software, Genetics, GenomeWideAssociation, SNP, VariantAnnotation Config/testthat/edition: 3 Config/roxygen2/version: 8.0.0 Config/pak/sysreqs: zlib1g-dev Repository: https://biocstaging.r-universe.dev Date/Publication: 2026-10-06 20:24:48 UTC RemoteUrl: https://github.com/BiocStaging/lantern RemoteRef: HEAD RemoteSha: fd0703b3db6b95aa7f1c2252b44981d70f423f2f NeedsCompilation: yes Packaged: 2026-10-07 08:25:49 UTC; root Author: Yu Wang [aut, cre], Bjoernar Tuftin [aut], Paul Auer [aut] Maintainer: Yu Wang