Added simulation helper functions sim_SDE() andmulti_init_simulation() for simulating stochastic differential equations (SDEs) and multiple initial conditions, respectively.
Added as.mcmc.list() method for lists of simulation outputs. The added simulation functions also have the option to return the output as an mcmc or mcmc.list object, so that they can be used with coda functions.
The landscape estimation functions now get a new parameterweight_var to specify the variable that contains the weight of each sample point. This may be useful if user applies importance sampling.
Added vignettes and more examples.
simlandr 0.3.1
Removed unused parameter Umax from the documentation ofmake_kernel_dist() (an internal function).
simlandr 0.3.0
Further improved documentation, function, and class names, and cleaned unnecessary exported functions. Removed some deprecated functions.
Made the parameter names of the landscape functions more consistent; used better default values for landscape functions.
For single simulation landscape functions, addedmake_*d_single() alias.
Removed some default values for barrier calculation functions (they are often not suitable and can be misleading).
Added print(), summary() andplot() methods for several classes.
Replaced get_geom() with a method of theautolayer() generic function from ggplot2.get_geom() is now deprecated.
Replaced get_barrier_height() with a method of thesummary() generic function.get_barrier_height() is now deprecated.
Renamed hash_big.matrix class tohash_big_matrix for consistent use of dots; renamed related functions accordingly.
Added coda::cumuplot() as a possible option forcheck_conv().
For barrier_batch objects, renamed the columnb to barrier to avoid possible conflicts.
Removed some unnecessary messages.
Added some examples to README.
Updated the vignette: updated some function, object, and parameter names; removed some references that we are now questioning.
Bug fix: Parameter vg inmake_barrier_grid_2d() andmake_barrier_grid_3d() was changed to ag and the class of this parameter was changed from var_grid(deprecated) to arg_grid.
simlandr 0.2.1
Updated roxygen2 version to ensure html5 compatibility (>= R 4.2.0).
simlandr 0.2.0
Renamed var and par in batch simulation functions to arg (argument) and ele(element).
Adjusted the algorithm of calculating minimal energy paths (previously “minimal elevation paths”).
Added an non-gradient example functionsim_fun_nongrad(); renamed sim_fun_test2() tosim_fun_grad().
Added title for the color bar in plot_ly based plots; used theme_bw() throughout all ggplot2 based plots.
Improved some documentation; included a new vignette.
simlandr 0.1.2
Improved the manual.
Added sim_fun_test2 function for testing.
Added ... for batch_simulation().
Added border for white dots in the geom ofcalculate_barrier_2d() andcalculate_barrier_2d_batch().