Hardy-Weinberg Equilibrium in Polyploids

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Documentation for package ‘hwep’ version 2.0.2

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

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hwep-package	Hardy-Weinberg Equilibrium in Polyploids
all_multinom	Get every possible non-negative tuple with of a given sum.
ddirmult	PMF of Dirichlet-multinomial distribution
dgamete	Gamete dosage probability
drbounds	Upper bounds on rates of double reduction
f1dr	Estimate Double Reduction in F1 Populations
freqnext	Update genotype frequencies after one generation
gibbs_gl	Gibbs sampler under random mating using genotype log-likelihoods.
gibbs_gl_alt	Gibbs sampler under the alternative of non-random mating using genotype log-likelihoods.
gibbs_known	Gibbs sampler under random mating with known genotypes.
gsegmat	Segregation probabilities of gametes
gsegmat_symb	Symbolic representation of the segregation probability matrix
hweboot	Bootstrap procedure to test for equilibrium
hwefit	Equilibrium and random mating estimation and testing for many loci.
hwefreq	Generate HWE genotype frequencies
hwelike	Maximum likelihood approach for equilibrium testing and double reduction estimation.
hwenodr	Test for HWE in autopolyploids under the assumption of no double reduction
hwep	Hardy-Weinberg Equilibrium in Polyploids
hweustat	U-process minimizer approach to equilibrium testing and double reduction estimation
menbayesgl	Bayes test for F1/S1 genotype frequencies using genotype likelihoods
p_from_alpha	Obtain gamete frequencies at equilibrium given rates of double reduction.
qqpvalue	QQ-plot for p-values
rmbayes	Bayes test for random mating with known genotypes
rmbayesgl	Bayes test for random mating using genotype log-likelihoods
rmlike	Likelihood inference for random mating
simgl	Simulator for genotype likelihoods.
ts_bands	Get simultaneous confidence bands for a uniform QQ-plot
zsegarray	Zygote segregation distributions.
zygdist	Zygote dosage probabilities.