NEWS.md

In tjthurman/BAHZ: Bayesian Analysis of Hybrid Zones

bahz 0.0.0.9019

New features/changes:

• Added the uniform distribution as a supported prior for delta parameters.

• In fit_geno_cline() and fit_pheno_cline(), added the ignore_data argument. This allows users to fit models using only their prior distributions, and the results of these models can be used to examine prior distributions and do prior predictive checks.

which can be used to run models without

• Tweaked which parameters are displayed with cline_cummary() when show.all = F.

Behind the scenes:

• Restructuring of Stan model code to be more modular and to fix a bug in which unneeded parameers could impede model convergence.

bahz 0.0.0.9018

New features/changes:

• Restructured package according to updated recommended structure in rstantools version 2.0.0.

bahz 0.0.0.9017

New features/changes:

• cline_summary() now provides both posterior means and posterior medians for each parameter.

• predict_cline() outputs best fit estimates based on both posterior means and posterior medians, and plot_cline() can plot best-fit lines based on either of these best-fit estimates (defaults to posterior means).

• predict_cline() and plot_cline() can now output both HPDI credible intervals (the default) and equal-tail (ET) credible intervals.

bahz 0.0.0.9016

Changes:

• Deleting unnecessary files that prevented installation on Windows and Linux.

• Remake corrupted file in test suite.

bahz 0.0.0.9015

Changes:

• Consolidated plot_geno_cline() and plot_pheno_cline() into a single function, plot_cline().

Behind the scenes:

• Streamlining of testing and argument checking for plot_cline(), predict_cline(), and cline_summary() functions.

bahz 0.0.0.9014

New features:

• Ability to add credible intervals when predicting clines and plotting clines.

• Updated phenotypic models to allow three different variance structures: constant across sites, differing across sites, or a pooled hierachical model.

bahz 0.0.0.9013

Bugfix update

• Fixes #57- A bug which caused bahz to always estimate increasing phenotypic clines, even when data were for a decreasing cline.

bahz 0.0.0.9012

Major update implementing phenotypic clines:.

• Fully implementeded for phenotypic clines (of normally distributed phenotypes), from simulated data to plotting.

• Improved template for prior specifications with more explanation.

• Unifies predict_*_cline functions.

• Adds support for new prior distributions: beta distributions for pmin, pmax, tauL, rauR, tauM, and f, and normal distributions for pmin and pmax.

• Added a citation file.

• Some minor typo fixes.

bahz 0.0.0.9011

First entry in the NEWS.md file. Beta, working version of the package.

• Fully implemented for genetic clines: from simulated data to plotting

• All functions documented

• All functions tested

• R CMD check passes with 1 note (on GNU make requirement).

tjthurman/BAHZ documentation built on May 30, 2020, 8:28 a.m.