| dudi.pco {ade4} | R Documentation |
dudi.pco performs a principal coordinates analysis of a Euclidean distance matrix
and returns the results as objects of class pco and dudi.
dudi.pco(d, row.w = "uniform", scannf = TRUE, nf = 2,
full = FALSE, tol = 1e-07)
## S3 method for class 'pco'
scatter(x, xax = 1, yax = 2, clab.row = 1, posieig = "top",
sub = NULL, csub = 2, ...)
d |
an object of class |
row.w |
an optional distance matrix row weights. If not NULL, must be a vector of positive numbers with length equal to the size of the distance matrix |
scannf |
a logical value indicating whether the eigenvalues bar plot should be displayed |
nf |
if scannf FALSE, an integer indicating the number of kept axes |
full |
a logical value indicating whether all the axes should be kept |
tol |
a tolerance threshold to test whether the distance matrix is Euclidean :
an eigenvalue is considered positive if it is larger than
|
x |
an object of class |
xax |
the column number for the x-axis |
yax |
the column number for the y-axis |
clab.row |
a character size for the row labels |
posieig |
if "top" the eigenvalues bar plot is upside, if "bottom" it is downside, if "none" no plot |
sub |
a string of characters to be inserted as legend |
csub |
a character size for the legend, used with |
... |
further arguments passed to or from other methods |
dudi.pco returns a list of class pco and dudi. See dudi
Daniel Chessel
Anne B Dufour anne-beatrice.dufour@univ-lyon1.fr
Gower, J. C. (1966) Some distance properties of latent root and vector methods used in multivariate analysis. Biometrika, 53, 325–338.
data(yanomama) gen <- quasieuclid(as.dist(yanomama$gen)) geo <- quasieuclid(as.dist(yanomama$geo)) ant <- quasieuclid(as.dist(yanomama$ant)) geo1 <- dudi.pco(geo, scann = FALSE, nf = 3) gen1 <- dudi.pco(gen, scann = FALSE, nf = 3) ant1 <- dudi.pco(ant, scann = FALSE, nf = 3) plot(coinertia(ant1, gen1, scann = FALSE))