Package: mpmsim 3.3.0

mpmsim: Simulation of Matrix Population Models with Defined Life History Characteristics

Allows users to simulate matrix population models with particular characteristics based on aspects of life history such as mortality trajectories and fertility trajectories. Also allows the exploration of sampling error due to small sample size.

Authors:Owen Jones [aut, cre]

mpmsim_3.3.0.tar.gz
mpmsim_3.3.0.zip(r-4.7)mpmsim_3.3.0.zip(r-4.6)mpmsim_3.3.0.zip(r-4.5)
mpmsim_3.3.0.tgz(r-4.6-any)mpmsim_3.3.0.tgz(r-4.5-any)
mpmsim_3.3.0.tar.gz(r-4.7-any)mpmsim_3.3.0.tar.gz(r-4.6-any)
mpmsim_3.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
mpmsim/json (API)
NEWS

# Install 'mpmsim' in R:

install.packages('mpmsim', repos = c('https://jonesor.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jonesor/mpmsim/issues

Pkgdown/docs site:https://jonesor.github.io

On CRAN:

5.62 score 5 stars 11 scripts 401 downloads 17 exports 83 dependencies

Last updated from:40c5b0a4c4. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	186
source / vignettes	OK	221
linux-release-x86_64	OK	185
macos-release-arm64	OK	153
macos-oldrel-arm64	OK	102
windows-devel	OK	133
windows-release	OK	141
windows-oldrel	OK	136
wasm-release	OK	125

Exports:add_mpm_error calculate_errors compute_ci compute_ci_U driven_vital_rate make_leslie_mpm model_fecundity model_fertility model_mortality model_reproduction model_survival plot_matrix rand_lefko_mpm rand_lefko_set rand_leslie_set reorganise_matrices summarise_mpms

Dependencies:base64enc bit bit64 bslib cachem cli clipr coda cpp11 crayon DiagrammeR digest dplyr evaluate expm farver fastmap fontawesome fs generics ggplot2 glue gtable highr hms htmltools htmlwidgets igraph isoband jquerylib jsonlite knitr labeling lattice lifecycle magrittr MASS Matrix MatrixModels mcmc MCMCpack memoise mime pillar pkgconfig plyr popbio popdemo prettyunits progress purrr quantreg R6 Rage rappdirs RColorBrewer Rcompadre Rcpp readr reshape rlang rmarkdown rstudioapi S7 sass scales SparseM stringi stringr survival tibble tidyr tidyselect tinytex tzdb utf8 vctrs viridisLite visNetwork vroom withr xfun yaml

Generating Lefkovitch models

Rendered fromgenerating_lefkovitch_models.Rmdusingknitr::rmarkdownon May 11 2026.

Last update: 2025-03-06
Started: 2024-10-12

Generating Leslie models

Rendered fromgenerating_leslie_models.Rmdusingknitr::rmarkdownon May 11 2026.

Last update: 2025-07-01
Started: 2024-10-12

Sampling error and its propagation

Rendered fromsampling_error_propagation.Rmdusingknitr::rmarkdownon May 11 2026.

Last update: 2025-03-06
Started: 2024-10-12

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Add sampling error to matrix population models (MPMs) based on expected values of transition rates and sample sizes	add_mpm_error
Calculate error (standard error or 95%CI) in elements of a matrix population model.	calculate_errors
Compute 95% confidence intervals for derived estimates from a matrix population model	compute_ci
Compute 95% confidence intervals for derived estimates from the U submatrix of a matrix population model	compute_ci_U
Calculate driven vital rates	driven_vital_rate
Create a Leslie matrix population model	make_leslie_mpm
Model reproductive output with age using set functional forms	model_fecundity model_fertility model_reproduction
Model mortality hazard, survivorship and age-specific survival probability using a mortality model	model_mortality model_survival
Plot a matrix as a heatmap	plot_matrix
Generate random Lefkovitch matrix population models (MPMs) based on life history archetypes	rand_lefko_mpm
Generate lists of Lefkovitch matrix population models (MPMs) based on life history archetypes	rand_lefko_set
Generate a set of random Leslie Matrix Population Models	rand_leslie_set
Reorganise Matrix Population Models	reorganise_matrices
Summarise Matrix Population Models	summarise_mpms