NEWS.md

In hwep: Hardy-Weinberg Equilibrium in Polyploids

hwep 2.0.2

• Add more options to simgl() to increase the flexibility of the simulations.
• Added an allopolyploid prior to the random mating tests.

hwep 2.0.1

• Updates package for compatibility with newer version of rstan.

hwep 2.0.0

• Added rmbayes() and associated functions for Bayes tests for random mating.
• Multiple restarts in EM algorithm for rmlike() to fix issues with local convergence.
• Added rmbayesgl() for Bayes test of random mating when using genotype likelihoods to account for genotype uncertainty. This uses the {rstan} package as a backend.
• Added glsim() for genotype likelihood simulation.
• qqpvalue() will now allow the user to return a ggplot object.
• Added menbayesgl() for testing Mendelian segregation frequencies from S1 and F1 populations.

hwep 0.0.2

• New function, qqpvalue(): A QQ-plot function for $p$-values on the $-\log_{10}$-scale.
• New function, ts_bands(): Calculates simultaneous confidence bands for uniform quantiles.
• New function, f1dr(): Estimates the double reduction rate from an F1 population via maximum likelihood.
• Edit aggregation strategy so that it works a little better to mitigate the effects of the asymptotic approximation.

hwep 0.0.1

• Initial release.

hwep documentation built on May 31, 2023, 9:06 p.m.