Package: PONG2
Type: Package
Title: KIR Genotype Imputation and Model Training from SNP Array Data
Version: 1.0.1
Date: 2026-05-30
Description: A scalable and accurate tool for Killer-cell
        Immunoglobulin-like Receptor (KIR) genotype imputation directly
        from SNP array data using supervised machine learning models
        trained across five continental ancestry groups. Uses attribute
        bagging and an ensemble classifier method with haplotype
        inference for SNPs and KIR types. Models are built from global
        populations in the 1000 Genomes Project and validated across
        diverse biobank cohorts. Methods are based on Zheng et al.
        (2014) <doi:10.1016/j.ajhg.2013.12.015> and Sadeeq et al.
        (2026) <https://github.com/NormanLabUCD/PONG2>.
Authors@R: c(
    person("Suraju A.", "Sadeeq", email = "suraju.sadeeq@cuanschutz.edu",
           role = c("aut", "cre")),
    person("Laura A.", "Leaton", role = "aut"),
    person("Katherine M.", "Kichula", role = "aut"),
    person("Paul J.", "Norman", role = "aut"),
    person("Xiuwen", "Zheng", role = c("ctb", "cph"),
           comment = "Original HIBAG C++ code adapted in src/PONG.cpp and src/LibKIR.cpp"))
Maintainer: Suraju A. Sadeeq <suraju.sadeeq@cuanschutz.edu>
License: GPL-3
URL: https://normanlabucd.github.io/PONG2/,
        https://github.com/NormanLabUCD/PONG2
BugReports: https://github.com/NormanLabUCD/PONG2/issues
Depends: R (>= 4.0.0)
Imports: parallel, graphics, stats, utils, tools
LinkingTo: Rcpp, RcppParallel
Suggests: HIBAG, knitr, rmarkdown, pkgdown, testthat
VignetteBuilder: knitr
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
SystemRequirements: PLINK2 (>= 2.0), minimac4 (>= 4.1.6, optional)
Config/pak/sysreqs: make
Repository: https://normanlabucd.r-universe.dev
Date/Publication: 2026-06-18 16:41:29 UTC
RemoteUrl: https://github.com/normanlabucd/pong2
RemoteRef: HEAD
RemoteSha: 8d5abc2df6c2d49bda9d06cea64a0ec01c116279
NeedsCompilation: yes
Packaged: 2026-06-25 08:19:16 UTC; root
Author: Suraju A. Sadeeq [aut, cre],
  Laura A. Leaton [aut],
  Katherine M. Kichula [aut],
  Paul J. Norman [aut],
  Xiuwen Zheng [ctb, cph] (Original HIBAG C++ code adapted in
    src/PONG.cpp and src/LibKIR.cpp)