Package: ecoCopula 1.0.2
Gordana Popovic
ecoCopula: Graphical Modelling and Ordination using Copulas
Creates 'graphs' of species associations (interactions) and ordination biplots from co-occurrence data by fitting discrete gaussian copula graphical models. Methods described in Popovic, GC., Hui, FKC., Warton, DI., (2018) <doi:10.1016/j.jmva.2017.12.002>.
Authors:
ecoCopula_1.0.2.tar.gz
ecoCopula_1.0.2.tar.gz(r-4.5-noble)ecoCopula_1.0.2.tar.gz(r-4.4-noble)
ecoCopula_1.0.2.tgz(r-4.4-emscripten)ecoCopula_1.0.2.tgz(r-4.3-emscripten)
ecoCopula.pdf |ecoCopula.html✨
ecoCopula/json (API)
NEWS
# Install 'ecoCopula' in R: |
install.packages('ecoCopula', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- spider - Spider data
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 3 years agofrom:9e4fd18a2b. Checks:OK: 1 NOTE: 1. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 27 2024 |
R-4.5-linux | NOTE | Nov 27 2024 |
Exports:cgrcordfitted.stackedsdmldTweedieplot.cgrplot.cordplot.stackedsdmpredict.stackedsdmprint.cgrprint.cordresiduals.stackedsdmsimulate.cordstackedsdmsummary.cgrsummary.cord
Dependencies:betaregclicodacodetoolscpp11doParallelfansiflexmixforeachFormulaglassoglm2glueigraphiteratorslatticelifecyclelmtestmagrittrMASSMatrixmgcvmodeltoolsmvabundnetworknlmennetnumDerivordinalpillarpkgconfigplyrRcppRcppGSLrlangsandwichsnastatmodstatnet.commontibbletweedieucminfutf8vctrszoo
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Fitting Gaussian copula graphical lasso to co-occurrence data | cgr |
Model based ordination with Gaussian copulas | cord |
Fitted values from a stackedsdm object | fitted.stackedsdm |
Plot graph of direct species associations. | plot.cgr |
Plots an ordination of latent variables and their corresponding coefficients (biplot). | plot.cord |
Plot residuals of stackedsdm. | plot.stackedsdm |
Predictions from a stackedsdm object | predict.stackedsdm |
Print function for cgr object | print.cgr |
Print function for cord object | print.cord |
Calculate residuals from a stackedsdm object | residuals.stackedsdm |
Simulates new data from a given cord object | simulate.cord |
Spider data | spider |
Stacked species regression models, possibly fitted in parallel | stackedsdm |
Summary function for cgr object | summary.cgr |
Summary function for cgr object | summary.cord |