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BayHap (version 1.0.1)

Bayesian analysis of haplotype association using Markov Chain Monte Carlo

Description

The package BayHap performs simultaneous estimation of uncertain haplotype frequencies and association with haplotypes based on generalized linear models for quantitative, binary and survival traits. Bayesian statistics and Markov Chain Monte Carlo techniques are the theoretical framework for the methods of estimation included in this package. Prior values for model parameters can be included by the user. Convergence diagnostics and statistical and graphical analysis of the sampling output can be also carried out.

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Version

Install

install.packages('BayHap')

Monthly Downloads

26

Version

1.0.1

License

GPL (>= 2)

Maintainer

Raquel Iniesta

Last Published

March 13th, 2013

Functions in BayHap (1.0.1)

correl

Correlation Matrix
plotRmean

Plot Running Mean of the Parameter Estimation
BIC

Bayesian Information Criterion
bayhapFreq

Estimation of haplotype frequencies
conv.test

Heidelberger and Welch Convergence Diagnostics
plotReg

Plot acf, running mean, density functions and trace histories
BayHap-package

Bayesian analysis of haplotype association using MCMC
BayHap-internal

Internal BayHap functions
bayhapReg

Bayesian analysis of haplotype association using Markov Chain Monte Carlo
haplo.prior

Prior values for model parameters
plotTrace

Plot Trace Histories
setupData

Check and prepares original data to be analyzed
plotFreq

Plot acf, running mean, density functions and trace histories
plotDensity

Plot Density Functions
autocorr

Autocorrelation Function
plotACF

Plot autocorrelation function