Type: Package
Package: MADPop
Title: MHC Allele-Based Differencing Between Populations
Version: 1.1.6
Date: 2023-10-13
Authors@R: 
    c(person(given = "Martin",
             family = "Lysy",
             role = c("cre", "aut"),
             email = "mlysy@uwaterloo.ca"),
      person(given = "Peter W.J.",
             family = "Kim",
             role = "aut"),
      person(given = "Terin",
             family = "Robinson",
             role = "ctb"))
Description: Tools for the analysis of population differences using the
        Major Histocompatibility Complex (MHC) genotypes of samples
        having a variable number of alleles (1-4) recorded for each
        individual.  A hierarchical Dirichlet-Multinomial model on the
        genotype counts is used to pool small samples from multiple
        populations for pairwise tests of equality.  Bayesian inference
        is implemented via the 'rstan' package.  Bootstrapped and
        posterior p-values are provided for chi-squared and likelihood
        ratio tests of equal genotype probabilities.
URL: https://github.com/mlysy/MADPop
BugReports: https://github.com/mlysy/MADPop/issues
License: GPL-3
Depends: R (>= 3.4.0), rstan (>= 2.26.0)
Imports: methods, Rcpp (>= 0.12.0), stats, rstantools
Suggests: knitr, rmarkdown, testthat
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0),
        rstan (>= 2.26.0), StanHeaders (>= 2.26.0), RcppParallel (>=
        5.0.1)
VignetteBuilder: knitr
SystemRequirements: GNU make
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.2.3
NeedsCompilation: yes
Config/pak/sysreqs: make
Repository: https://mlysy.r-universe.dev
Date/Publication: 2024-02-26 17:23:21 UTC
RemoteUrl: https://github.com/mlysy/madpop
RemoteRef: HEAD
RemoteSha: d40d77b12fe2c1689d1d5850a8cbbee3b83af7cd
Packaged: 2026-06-13 10:46:23 UTC; root
Author: Martin Lysy [cre, aut],
  Peter W.J. Kim [aut],
  Terin Robinson [ctb]
Maintainer: Martin Lysy <mlysy@uwaterloo.ca>