HWEBayes: Bayesian investigation of Hardy-Weinberg Equilibrium via estimation and testing.
Version 1.4

Estimation and testing of HWE using Bayesian methods. Three models are currently considered: HWE, a model parameterized in terms of the allele frequencies and a single inbreeding coefficient f, and the saturated model. Testing is based on Bayes factors.

Browse man pages Browse package API and functions Browse package files

AuthorJon Wakefield [aut, cre], Martyn Plummer [ctb]
Date of publication2013-12-18 12:03:46
MaintainerJon Wakefield <jonno@u.washington.edu>
LicenseGPL-2
Version1.4
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("HWEBayes")

Man pages

baselogit: Calculates a set of baseline logits from a set of...
DiabRecess: Data on diabetes patients antigen classes
DirichNormHWE: Evaluates the normalizing constant under the HWE model, with...
DirichNormSat: Evaluates the normalizing constant (as used in the...
DirichSampHWE: Simulate samples from a Dirichlet prior or posterior under...
DirichSampSat: Simulate samples from a Dirichlet prior or posterior under...
HWEDirichBF2: Evaluates the Bayes factor in the k=2 allele case under...
HWEImportSamp: Importance sampling to calculate the normalizing constant...
HWEmodelsMLE: Evaluates the maximum likelihood estimates of the parameters...
HWEsimdat: Simulate data under the single f model with k alleles.
HWETriangBF2: Evaluates the Bayes factor in the k=2 allele case with a...
invbaselogit: Converts a set of k-1 baseline logits into a set of...
LambdaOptim: Obtains values for the prior specification for lambda
MultLogLik: Evaluates the Multinomial likelihood under the single f model
MultLogLikP: Evaluates the Multinomial likelihood under the single f model
SinglefPrior: Samples from the single f prior.
SinglefReject: Samples from the posterior for the single f model
TriangNormHWE: Evaluates the normalizing constant under the HWE model, for...

Functions

DiabRecess Man page
DirichNormHWE Man page Source code
DirichNormSat Man page Source code
DirichSampHWE Man page Source code
DirichSampSat Man page Source code
HWEDirichBF2 Man page Source code
HWEImportSamp Man page Source code
HWETriangBF2 Man page Source code
HWEmodelsMLE Man page Source code
HWEsimdat Man page Source code
LambdaOptim Man page Source code
MultLogLik Man page Source code
MultLogLikP Man page Source code
SinglefPrior Man page Source code
SinglefReject Man page Source code
TriangNormHWE Man page Source code
baselogit Man page Source code
invbaselogit Man page Source code

Files

inst
inst/CITATION
inst/doc
inst/doc/HWEBayes-Guide.R
inst/doc/HWEBayes-Guide.pdf
inst/doc/HWEBayes-Guide.Snw
NAMESPACE
data
data/DiabRecess.rda
R
R/HWEImportSamp.R
R/LambdaOptim.R
R/HWEmodelsMLE.R
R/SinglefPrior.R
R/DirichSampHWE.R
R/HWEsimdat.R
R/DirichNormSat.R
R/SinglefReject.R
R/TriangNormHWE.R
R/HWEDirichBF2.R
R/HWETriangBF2.R
R/DirichSampSat.R
R/baselogit.R
R/DirichNormHWE.R
R/MultLogLik.R
R/invbaselogit.R
vignettes
vignettes/HWEBayes-Guide.Snw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/LambdaOptim.Rd
man/DirichNormHWE.Rd
man/DirichSampHWE.Rd
man/MultLogLikP.Rd
man/SinglefReject.Rd
man/SinglefPrior.Rd
man/baselogit.Rd
man/invbaselogit.Rd
man/TriangNormHWE.Rd
man/HWEmodelsMLE.Rd
man/HWEDirichBF2.Rd
man/DirichSampSat.Rd
man/HWETriangBF2.Rd
man/HWEImportSamp.Rd
man/DirichNormSat.Rd
man/HWEsimdat.Rd
man/DiabRecess.Rd
man/MultLogLik.Rd
HWEBayes documentation built on May 20, 2017, 12:34 a.m.