Package: MADPop
Type: Package
Title: MHC Allele-Based Differencing Between Populations
Version: 1.1
Date: 2017-01-15
Authors@R: c(person("Martin", "Lysy", role = c("cre", "aut"),
                    email = "mlysy@uwaterloo.ca"),
             person("Peter W.J.", "Kim", role = "aut"),
	     person("Terin", "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.
Depends: R (>= 3.0.2), rstan (>= 2.14.1)
Imports: stats, utils, Rcpp (>= 0.12.9), methods (>= 3.3.2)
LinkingTo: StanHeaders (>= 2.14.0.1), rstan (>= 2.14.1), BH (>=
        1.62.0.1), Rcpp (>= 0.12.9), RcppEigen (>= 0.3.2.9.0)
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
License: GPL-3
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2017-01-18 06:22:06 UTC; mlysy
Author: Martin Lysy [cre, aut],
  Peter W.J. Kim [aut],
  Terin Robinson [ctb]
Maintainer: Martin Lysy <mlysy@uwaterloo.ca>
Repository: CRAN
Date/Publication: 2017-01-18 08:37:33
Built: R 3.3.2; x86_64-apple-darwin13.4.0; 2017-01-19 12:04:30 UTC; unix
Archs: MADPop.so.dSYM
