Unfolding: Multidimensional Unfolding
In villardon/MultBiplotR: Multivariate Analysis Using Biplots in R

Description Usage Arguments Details Value Author(s) References Examples

Multidimensional Unfolding with some adaptations for vegetation analysis

Unfolding(A, ENV = NULL, TransAbund = "Gaussian Columns", offset = 0.5, 
weight = "All_1", Constrained = FALSE, 
TransEnv = "Standardize columns", 
InitConfig = "SVD", model = "Ratio", 
condition = "Columns", Algorithm = "SMACOF", 
OptimMethod = "CG", r = 2, maxiter = 100, 
tolerance = 1e-05, lambda = 1, omega = 0, plot = FALSE)

`A`	The original proximities matrix
`ENV`	The matrix of environmental variables
`TransAbund`	Initial transformation of the abundances : "None", "Gaussian", "Column Percent", "Gaussian Columns", "Inverse Square Root", "Divide by Column Maximum")
`offset`	offset is the quantity added to the zeros of the table
`weight`	A matrix of weights for each cell of the table
`Constrained`	Should fit a constrained analysis
`TransEnv`	Transformation of the environmental variables
`InitConfig`	Init configuration for the algorithm
`model`	Type of model to be fitted: "Identity", "Ratio", "Interval" or "Ordinal".
`condition`	"Matrix", "Columns" to condition to the whole matrix or to each column
`Algorithm`	Algorithm to fit the model: "SMACOF", "GD", "Genefold"
`OptimMethod`	Optimization method for gradient descent
`r`	Dimension of the solution
`maxiter`	Maximum number of iterations in the algorithm
`tolerance`	Tolerace for the algorithm
`lambda`
`omega`
`plot`

ological data

An object of class "Unfolding"

Jose Luis Vicente Villardon

Ver Articulos

unf=Unfolding(SpidersSp, ENV=SpidersEnv, model="Ratio", Constrained = FALSE, condition="Matrix")
plot(unf, PlotTol=TRUE, PlotEnv = FALSE)
plot(unf, PlotTol=TRUE, PlotEnv = TRUE)
cbind(unf$QualityVars, unf$Var_Fit)
unf2=Unfolding(SpidersSp, ENV=SpidersEnv, model="Ratio", Constrained = TRUE, condition="Matrix")
plot(unf2, PlotTol=FALSE, PlotEnv = TRUE, mode="s")
cbind(unf2$QualityVars, unf2$Var_Fit)