Stochastic Island Biogeography Theory Made Easy

Tools to develop stochastic models based on the Theory of Island Biogeography (TIB) of MacArthur and Wilson (1967) and extensions. The package implements methods to estimate colonization and extinction rates (including environmental variables) given presence-absence data, simulate community assembly, and perform model selection.


News

island 0.2.4

  • Memory leaks in C code solved.
  • Added DOI to citation.
  • Minor changes to documentation of the functions sss_cedp, mss_cedp and upgma_model_selection.

island 0.2.3

  • Tests sample data has been hardcoded to avoid problems of RNG versions.
  • Citation added

island 0.2.2

  • Duplicated hyperlinks to the vignettes with duplicate titles removed.

island 0.2.1

  • Vignettes island, IBDmodels and detectability added.
  • Added functions sss_cedp, mss_cedp and upgma_model_selection that deal with imperfect detectability when data for replicates is present.
  • Added function ibd_models that produce population data for three different models.
  • Added functions NLL_rss, NLL_isd, NLL_imd and NLL_env for ready calculation of Negative Log-Likelihoods for specified parameters in each of the sampling schemes treated here.
  • Changed and unified output of regular_sampling_scheme and irregular_single_dataset, irregular_multiple_datasets.
  • Fixed bugs in PA_simulation, regular_sampling_scheme, irregular_single_dataset, irregular_multiple_datasets and weight_of_evidence.
  • Added unitary tests for the package.

island 0.1.3

Minor changes:

  • Added a Doi for the original source of dataset idaho.
  • Changed functions cetotrans, data_generation and PA_simulation to further integrate the environmental covariates framework in the package.
  • Corrected some typos.
  • Renamed dataset alonso to alonso15 (to reflect that it comes from Alonso's article of 2015).

Reference manual

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install.packages("island")

0.2.4 by Vicente Jimenez, 2 months ago


Browse source code at https://github.com/cran/island


Authors: Vicente Jimenez [aut, cre] , David Alonso [aut]


Documentation:   PDF Manual  


GPL-3 license


Depends on stats, utils

Suggests testthat, knitr, rmarkdown, rootSolve


See at CRAN