gdm: Functions for Generalized Dissimilarity Modeling

A toolkit with functions to fit, plot, and summarize Generalized Dissimilarity Models.

Author
Glenn Manion, Matthew Lisk, Simon Ferrier, Diego Nieto-Lugilde, Matthew C. Fitzpatrick
Date of publication
2016-04-16 04:54:18
Maintainer
Matthew C. Fitzpatrick <mfitzpatrick@al.umces.edu>
License
GPL-2
Version
1.2.3

View on CRAN

Man pages

createsitepair
Creates Site-Pair Table
formatsitepair
Converts Common Biological (Response) and Environmental...
gdm
Fit a Generalized Dissimilarity Model to Tabular Site-Pair...
gdmDissim
A sample biological dissimilarity matrix for use in GDM...
gdmExpData
Species and environmental data used in GDM examples
gdm-package
Overview of the functions in the gdm package
gdm.transform
Transform Environmental Data Using a Generalized...
gd.varImp
Estimate variable importance/significance in gdm using matrix...
isplineExtract
Extract I-spline Values From a gdm Object.
permutateSitePair
Permutate Site-Pair Table Rows
permutateVarSitePair
Permutate the Values of a Site-Pair Table Variable
plot.gdm
Plot model fit and I-splines from a generalized dissimilarity...
plotUncertainty
Plot variance of I-splines using bootstrapping.
predict.gdm
Predict Biological Dissimilarities Between Sites or Times...
removeSitesFromSitePair
Remove Sites from Site-Pair Table
stackedVars
Worldclim climate variables used to fit GDM in examples
summary.gdm
Summarize a Fitted Generalized Dissimilarity Model

Files in this package

gdm
gdm/inst
gdm/inst/extdata
gdm/inst/extdata/stackedVars.gri
gdm/inst/extdata/stackedVars.grd
gdm/inst/doc
gdm/inst/doc/gdmVignette.pdf.asis
gdm/inst/doc/gdmVignette.pdf
gdm/src
gdm/src/myCallback.h
gdm/src/Makevars
gdm/src/NNLS_Double.cpp
gdm/src/NNLSDoubleCore.cpp
gdm/src/Message.h
gdm/src/NNLS_Double.h
gdm/src/Message.cpp
gdm/src/Gdmlib.cpp
gdm/src/Gdmlib.h
gdm/src/stdafx.cpp
gdm/src/stdafx.h
gdm/src/Makevars.win
gdm/src/NNLSDoubleCore.h
gdm/src/GDM_Globals.h
gdm/src/dllmain.cpp
gdm/NAMESPACE
gdm/data
gdm/data/gdm.RData
gdm/R
gdm/R/GDM_Table_Funcs.R
gdm/vignettes
gdm/vignettes/gdmVignette.pdf.asis
gdm/MD5
gdm/build
gdm/build/vignette.rds
gdm/DESCRIPTION
gdm/man
gdm/man/gdmExpData.Rd
gdm/man/permutateVarSitePair.Rd
gdm/man/stackedVars.Rd
gdm/man/plotUncertainty.Rd
gdm/man/removeSitesFromSitePair.Rd
gdm/man/predict.gdm.Rd
gdm/man/gdm.Rd
gdm/man/gdmDissim.Rd
gdm/man/plot.gdm.Rd
gdm/man/gdm.transform.Rd
gdm/man/permutateSitePair.Rd
gdm/man/gdm-package.Rd
gdm/man/isplineExtract.Rd
gdm/man/formatsitepair.Rd
gdm/man/createsitepair.Rd
gdm/man/summary.gdm.Rd
gdm/man/gd.varImp.Rd