MHC Allele-Based Differencing Between Populations

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.


News

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("MADPop")

1.1 by Martin Lysy, a month ago


Browse source code at https://github.com/cran/MADPop


Authors: Martin Lysy [cre, aut], Peter W.J. Kim [aut], Terin Robinson [ctb]


Documentation:   PDF Manual  


GPL-3 license


Imports stats, utils, Rcpp, methods

Depends on rstan

Suggests knitr, rmarkdown

Linking to StanHeaders, rstan, BH, Rcpp, RcppEigen


See at CRAN