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.
Version: 1.1.7 Depends: R (≥ 3.4.0), rstan (≥ 2.26.0) Imports: methods, Rcpp (≥ 0.12.0), stats, rstantools 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) Suggests: knitr, rmarkdown, testthat Published: 2024-02-27 DOI: 10.32614/CRAN.package.MADPop Author: Martin Lysy [cre, aut], Peter W.J. Kim [aut], Terin Robinson [ctb] Maintainer: Martin Lysy <mlysy at uwaterloo.ca> BugReports: https://github.com/mlysy/MADPop/issues License: GPL-3 URL: https://github.com/mlysy/MADPop NeedsCompilation: yes SystemRequirements: GNU make Materials: NEWS CRAN checks: MADPop resultsRetroSearch is an open source project built by @garambo | Open a GitHub Issue
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