supcol: Projections of Supplementary Columns

In ade4: Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences

Description

performs projections of supplementary columns.

Usage

supcol(x, ...)
## S3 method for class 'dudi'
supcol(x, Xsup, ...) 
## S3 method for class 'coa'
supcol(x, Xsup, ...) 

Arguments

x	an object used to select a method
Xsup	an array with the supplementary columns (Xsup and x$tab have the same row number)
...	further arguments passed to or from other methods

Details

If supcol.dudi is used, the column vectors of Xsup are projected without prior modification onto the principal components of dudi with the scalar product associated to the row weightings of dudi.

Value

A list of two components:

tabsup	data frame containing the array with the supplementary columns transformed or not
cosup	data frame containing the coordinates of the supplementary projections

Author(s)

Daniel Chessel
Anne B Dufour [e-mail]

Examples

data(rpjdl)
rpjdl.coa <- dudi.coa(rpjdl$fau, scan = FALSE, nf = 4)
rpjdl.coa$co[1:3, ]
supcol(rpjdl.coa, rpjdl$fau[, 1:3])$cosup  #the same

data(doubs)
dudi1 <- dudi.pca(doubs$fish, scal = FALSE, scan = FALSE)
if(adegraphicsLoaded()) {
  g1 <- s.arrow(dudi1$co, plot = FALSE)
  g2 <- s.arrow(supcol(dudi1, data.frame(scalewt(doubs$env)))$cosup, plab.cex = 2, plot = FALSE)
  G <- superpose(g1, g2, plot = TRUE)
  
} else {
  s.arrow(dudi1$co)
  s.arrow(supcol(dudi1, data.frame(scalewt(doubs$env)))$cosup, add.p = TRUE, clab = 2)
  symbols(0, 0, circles = 1, inches = FALSE, add = TRUE)
}

Example output

        Comp1      Comp2       Comp3     Comp4
AR  1.3906689 -0.4366455 -0.08999631 0.4036248
CP -0.8298783 -0.2134175 -0.99500547 0.8763367
ST -0.6045373  0.1035953 -0.68205770 0.4254950
        Comp1      Comp2       Comp3     Comp4
AR  1.3906689 -0.4366455 -0.08999631 0.4036248
CP -0.8298783 -0.2134175 -0.99500547 0.8763367
ST -0.6045373  0.1035953 -0.68205770 0.4254950

ade4 documentation built on May 2, 2019, 5:50 p.m.