DHARMa 0.4.7

New Features

• Includes support for the package phylolm.
• New function for testing residual phylogenetic autocorrelation testPylogeneticAutocorrelation().

Major change

• New optional argument 'rotation' in simulateResiduals() for the rotation of the residual space prior to calculating the quantile residuals to account for residual covariance as created by temporal, spatial or phylogenetic autocorrelation.

Minor changes

• Residual plots: Option to change the red color for significant results to any color of preference through options(DHARMaSignalColor = "red"). This is a good option for color-blind-friendly plots.
• Documentation: improved help files and vignette.

DHARMa 0.4.6

New Features

• new function benchmarkRuntime() for checking runtime of functions
• new function simulatedLRT() to generate a simulated likelihood ratio test

Bugfixes

• fixed issue with parallelization in runBenchmarks
• various minor bugfixed and help improvements

DHARMa 0.4.5

Minor changes

• included option to simulate mgcv models using the functions implemented in mgcViz which should improve mgcv compatibility with DHARMa

• Added option to include plot title in plot() #320

Bugfixes

• fixed issues with plotting, see #313 and #274

DHARMa 0.4.4

DHARMa 0.4.4

Major changes

• remodelled tests so that all tested packages can be used conditionally

Minor changes

• re-introduced glmmTMB to suggests
• phyr moved to enhances
• re-modelled package unit tests
• added RStan, CmdStanR, rjags, BayesianTools to enhances, as they coudld be used with DHARMa
• moved parallel calculations in runBenchmark to R native parallel functions

New features

• Added rotation option to all functions that create residuals (simulateResiduals, recalculateResiduals, createDHARMa)

Documentation

• Added help comments about autocorrelation structures, in particular in simulateResiduals, testSpatialAutocorrelation, testTemporalAutocorrelation
• Added example about the use of rotation in testTemporalAutocorrelation
• Improved help of dispersion test

DHARMa 0.4.3.1

reintroduced glmmTMB

DHARMa 0.4.3

Bugfixes

• Removed glmmTMB completely, see #289

DHARMa 0.4.2

Bugfixes

• Moved glmmTMB from suggest to import because this package is used in the vignette, see #289

Minor changes

• Added hurricane dataset
• Help and vignette updates

DHARMa 0.4.1

Bugfixes

• Force method = traditional for refit = T, as it turns out that the PIT method is not a good idea on the residuals, see #272

DHARMa 0.4.0

This is a bugfix release for 0.3.4, but on reflection I decided that 0.4.0 should have been a minor release, so I pushed the version number up to 0.4.0

DHARMa 0.3.4

0.3.4 is a relatively important release with various minor improvements a smaller new features, most noteworthy the support of glmmAdaptive

New features

• added parametric dispersion test in testDispersion (0.3.3.2)
• support for glmmAdaptive (0.3.3.1)
• new plot for categorical predictors
• new plots for result of runBenchmarks

Major changes

Minor changes

• changed test statistics in standard dispersion test to standardized variance, to be more in line with standard dispersion parameters
• defaults for plot function unified
• removed option to provide no x,y / time in the correlation tests
• recalculateResiduals now allows subsetting #246
• better input checking in correlation tests #190

Bugfixes

• bugfix in runBenchmarks included in #247
• bugfix in testQuantiles #261
• bugfix in getRandomState #254