mpmsim 3.3.0

• Fixed typo in calculate_errors(): the mat_U_error element in the returned list was incorrectly named ,mat_U_error when type = "sem", causing NULL to be returned on access.
• Fixed broken vectorisation in driven_vital_rate(): conditions length(slope > 1) and length(error_sd > 1) were always evaluating to TRUE regardless of input, preventing correct handling of matrix inputs.
• Fixed wrong parameter row indices in rand_leslie_set() for the Siler mortality model (b_0 and b_1 were drawn from the same ranges as a_0 and a_1) and for multi-parameter fecundity models (logistic, vonBertalanffy, normal, hadwiger), where all parameters were incorrectly drawn from the first row of fecundity_params.
• Removed orphaned expression in internal function add_mpm_error_indiv() that had no effect.

mpmsim 3.2.1

• minor bug fixes.

mpmsim 3.2.0

• minor bug fixes and documentation improvements.
• removed deprecated functions generate_mpm_set() and random_mpm()

mpmsim 3.1.0

• Added function synonym: model_reproduction() is synonymous with model_fertility and model_fecundity.
• Improved documentation including to the three vignettes focussing on Leslie models, Lefkovitch models, and error propagation respectively.
• Fixed minor typographical errors in other documentation.

mpmsim 3.0.0

• When sets of matrices are returned as CompadreDB objects, the archetype (Lefkovitch) or model parameters (Leslie), are now included as metadata.
• Added function rand_leslie_set() to generate sets of Leslie matrices where the parameters of the constituent mortality and fertility functions are drawn randomly from defined distributions. The function returns a CompadreDB object by default, but can also be set to produce lists of MPMs or life tables.
• generate_mpm_set() is now deprecated, and will be removed at a later date. Users should use rand_lefko_set() instead.
• random_mpm() is now deprecated, and will be removed at a later date. Users should use rand_lefko_mpm() instead.
• The new set generation functions omit the arguments split, by_type and as_compadre, which governed output types in generate_mpm_set(). These arguments been replaced with a simpler and more transparent argument, output.
• Added new function compute_ci_U() which calculates confidence intervals for traits derived from matrix models where only the U submatrix is used. For example, life expectancy (using the function Rage::life_expect_mean()).
• Added a vignette for generating Leslie matrices.
• Added a vignette for generating Lefkovitch matrices.

mpmsim 2.0.0

• removed dependency on MCMCpack, which is reportedly being archived from CRAN. This change means that previous versions of mpmsim may not function correctly and it is advisable to update to the new version.

mpmsim 1.1.0

• modified the simulation of fecundity in random_mpm(). Now the values are provided as mean fecundity and can be provided as a range of values, whereby a value is drawn from a random uniform distribution. This is the best way to create a set of models with different fecundity properties.
• added function to simulate the action of drivers such as weather on vital rates: drive_vital_rate().
• added model_mortality() as an alias for model_survival().
• function generate_mpm_set() now returns a CompadreDB object by default.
• added full suite of unit tests using testthat. Test coverage 97.17%.

mpmsim 1.0.0

First release, with the following functionality.

• Functions for simulating Lefkovitch matrix models: generate_mpm_set() andrandom_mpm().
• A function for constructing Leslie matrix models: make_leslie_mpm(), which can make use of outputs from functions for describing demographic trajectories (model_fertility() and model_survival()).
• Functions for calculating and propagating error: add_mpm_error(), calculate_errors() and compute_ci().
• A utility function: plot_matrix()