STEPCAM: ABC-SMC Inference of STEPCAM

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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.

Author
Thijs Janzen [aut, cre], Fons van der Plas [aut], Thorsten Hauffe [ctb]
Date of publication
2016-09-21 12:21:01
Maintainer
Thijs Janzen <thijsjanzen@gmail.com>
License
GPL-2
Version
1.2
URLs

View on CRAN

Man pages

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

Files in this package

STEPCAM
STEPCAM/inst
STEPCAM/inst/doc
STEPCAM/inst/doc/STEPCAM_plotting.html
STEPCAM/inst/doc/STEPCAM_plotting.Rmd
STEPCAM/inst/doc/STEPCAM_plotting.R
STEPCAM/inst/doc/STEPCAM.Rmd
STEPCAM/inst/doc/STEPCAM.R
STEPCAM/inst/doc/STEPCAM.html
STEPCAM/tests
STEPCAM/tests/testthat.R
STEPCAM/tests/testthat
STEPCAM/tests/testthat/test-plotSTEPCAM.R
STEPCAM/tests/testthat/test-plotSMC.R
STEPCAM/tests/testthat/test-STEPCAM.R
STEPCAM/tests/testthat/test-GenerateValues.R
STEPCAM/tests/testthat/test-STEPCAM_ABC.R
STEPCAM/tests/testthat/test-getRandomVals.R
STEPCAM/tests/testthat/test-TernPlot.R
STEPCAM/tests/testthat/test-scaleSpeciesValues.R
STEPCAM/tests/testthat/test-strippeddbFD.R
STEPCAM/tests/testthat/test-calcSD.R
STEPCAM/tests/testthat/test-perturb.R
STEPCAM/tests/testthat/test-ABC_SMC.R
STEPCAM/tests/testthat/test-generateFrequencies.R
STEPCAM/tests/testthat/test-normalizeWeights.R
STEPCAM/tests/testthat/test-ordinationAxes.R
STEPCAM/NAMESPACE
STEPCAM/R
STEPCAM/R/Preparation.R
STEPCAM/R/STEPCAM.R
STEPCAM/R/ternPlot.R
STEPCAM/R/modified_dbFD.R
STEPCAM/R/generateArtificialData.R
STEPCAM/R/ABC_SMC.R
STEPCAM/R/main.R
STEPCAM/vignettes
STEPCAM/vignettes/STEPCAM_plotting.Rmd
STEPCAM/vignettes/STEPCAM.Rmd
STEPCAM/README.md
STEPCAM/MD5
STEPCAM/build
STEPCAM/build/vignette.rds
STEPCAM/DESCRIPTION
STEPCAM/man
STEPCAM/man/STEPCAM_ABC.Rd
STEPCAM/man/plotSMC.Rd
STEPCAM/man/STEPCAM-internal.Rd
STEPCAM/man/generate.Artificial.Data.Rd
STEPCAM/man/plotSTEPCAM.Rd
STEPCAM/man/STEPCAM-package.Rd
STEPCAM/man/TernPlot.Rd