Package: MADPop 1.1.6

MADPop: 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.

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

MADPop_1.1.6.tar.gz
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MADPop.pdf |MADPop.html✨
MADPop/json (API)
NEWS

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Bug tracker:https://github.com/mlysy/madpop/issues

On CRAN:

5 exports 1 stars 1.02 score 53 dependencies 8 scripts 255 downloads

Last updated 7 months agofrom:d40d77b12f. Checks:OK: 1 NOTE: 8. Indexed: yes.

Exports:chi2.stathUM.postLRT.statUM.eqtestUM.suff

Dependencies:abindbackportsBHcallrcheckmateclicolorspacedescdistributionalfansifarvergenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsmgcvmunsellnlmenumDerivpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelrlangrstanrstantoolsscalesStanHeaderstensorAtibbleutf8vctrsviridisLitewithr