Package: STEPCAM 1.2.2

STEPCAM: ABC-SMC Inference of STEPCAM

Collection of model estimation, and model plotting functions related to the STEPCAM family of community assembly models. STEPCAM is a STEPwise Community Assembly Model that infers the relative contribution of Dispersal Assembly, Habitat Filtering and Limiting Similarity from a dataset consisting of the combination of trait and abundance data. See also <http://onlinelibrary.wiley.com/wol1/doi/10.1890/14-0454.1/abstract> for more information.

Authors:Thijs Janzen [aut, cre], Fons van der Plas [aut], Thorsten Hauffe [ctb]

STEPCAM_1.2.2.tar.gz
STEPCAM_1.2.2.zip(r-4.5)STEPCAM_1.2.2.zip(r-4.4)STEPCAM_1.2.2.zip(r-4.3)
STEPCAM_1.2.2.tgz(r-4.4-any)STEPCAM_1.2.2.tgz(r-4.3-any)
STEPCAM_1.2.2.tar.gz(r-4.5-noble)STEPCAM_1.2.2.tar.gz(r-4.4-noble)
STEPCAM_1.2.2.tgz(r-4.4-emscripten)STEPCAM_1.2.2.tgz(r-4.3-emscripten)
STEPCAM.pdf |STEPCAM.html✨
STEPCAM/json (API)

# Install 'STEPCAM' in R:

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

Bug tracker:https://github.com/thijsjanzen/stepcam/issues

On CRAN:

4.81 score 5 stars 13 scripts 138 downloads 1 mentions 24 exports 23 dependencies

Last updated 4 years agofrom:76e95ef519. Checks:OK: 1 ERROR: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 02 2024
R-4.5-win	ERROR	Nov 02 2024
R-4.5-linux	ERROR	Nov 02 2024
R-4.4-win	ERROR	Nov 02 2024
R-4.4-mac	ERROR	Nov 02 2024
R-4.3-win	ERROR	Nov 02 2024
R-4.3-mac	ERROR	Nov 02 2024

Exports:calcSD calculateDistance calculateWeight detMnbsp fallout.competition fallout.dispersal fallout.filtering generate.Artificial.Data generateFrequencies generateValues getFromPrevious getRandomVals normalizeWeights ordinationAxes perturb plot_element plotSMC plotSTEPCAM scaleSpeciesvalues STEPCAM STEPCAM_ABC strippedDbFd ternaryplot2 TernPlot

Dependencies:abind ade4 ape cluster digest FD geometry gtools lattice linprog lpSolve magic MASS Matrix mgcv nlme permute pixmap Rcpp RcppArmadillo RcppProgress sp vegan

Example workflow of STEPCAM

Thijs Janzen

Rendered fromSTEPCAM.Rmdusingknitr::rmarkdownon Nov 02 2024.

Last update: 2016-09-21
Started: 2016-09-20

STEPCAM: plotting results

Thijs Janzen

Rendered fromSTEPCAM_plotting.Rmdusingknitr::rmarkdownon Nov 02 2024.

Last update: 2016-09-21
Started: 2016-09-20

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
ABC-SMC Inference of STEPCAM	STEPCAM-package
Generate Artifical data that can be used by the STEPCAM model	generate.Artificial.Data
Plot the progression of the SMC algorithm.	plotSMC
Plot the output generated by the STEPCAM_ABC function	plotSTEPCAM
ABC-SMC inference of the STEPCAM model	STEPCAM_ABC
Create a ternary plot from results of the STEPCAM_ABC function	TernPlot