Tests of randomization between distances applied to 'kdist' objetcs
The mantelkdist and RVkdist functions apply to blocks of distance matrices the mantel.rtest and RV.rtest functions.
mantelkdist (kd, nrepet = 999, ...) RVkdist (kd, nrepet = 999, ...) ## S3 method for class 'corkdist' plot(x, whichinrow = NULL, whichincol = NULL, gap = 4, nclass = 10,...)
kd |
a list of class |
nrepet |
the number of permutations |
x |
an objet of class |
whichinrow |
a vector of integers to select the graphs in rows (if NULL all the graphs are computed) |
whichincol |
a vector of integers to select the graphs in columns (if NULL all the graphs are computed) |
gap |
an integer to determinate the space between two graphs |
nclass |
a number of intervals for the histogram |
... |
further arguments passed to or from other methods |
The corkdist class has some generic functions print, plot and summary. The plot shows bivariate scatterplots between semi-matrices of distances or histograms of simulated values with an error position.
a list of class corkdist containing for each pair of distances an object of class randtest (permutation tests).
Daniel Chessel
Stéphane Dray stephane.dray@univ-lyon1.fr
data(friday87) fri.w <- ktab.data.frame(friday87$fau, friday87$fau.blo, tabnames = friday87$tab.names) fri.kc <- lapply(1:10, function(x) dist.binary(fri.w[[x]], 10)) names(fri.kc) <- substr(friday87$tab.names, 1, 4) fri.kd <- kdist(fri.kc) fri.mantel <- mantelkdist(kd = fri.kd, nrepet = 999) plot(fri.mantel, 1:5, 1:5) plot(fri.mantel, 1:5, 6:10) plot(fri.mantel, 6:10, 1:5) plot(fri.mantel, 6:10, 6:10) s.corcircle(dudi.pca(as.data.frame(fri.kd), scan = FALSE)$co) plot(RVkdist(fri.kd), 1:5, 1:5) data(yanomama) m1 <- mantelkdist(kdist(yanomama), 999) m1 summary(m1) plot(m1)
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