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Computes the rank correlation between distances between sites in terms of gradient variables, such as environmental ones, and species composition.
rankDC(g, y, dc = c("chord", "bray", "euclidean", "chi.square", "gower"), method = "spearman")# S3 method for rankDC plot(x, sort = TRUE, decreasing = FALSE, xlab = "Rank correlation", color = "blue", pch = 21, bg = "blue", lcolor = "grey", lty = "solid", ...)# S3 method for rankDC dotplot(x, data = NULL, sort = TRUE, decreasing = FALSE, xlab = "Rank correlation", ...)
# S3 method for rankDC plot(x, sort = TRUE, decreasing = FALSE, xlab = "Rank correlation", color = "blue", pch = 21, bg = "blue", lcolor = "grey", lty = "solid", ...)
# S3 method for rankDC dotplot(x, data = NULL, sort = TRUE, decreasing = FALSE, xlab = "Rank correlation", ...)
A named vector of rank correlations is returned.
the gradient values; usually a data frame of environmental data.
the species data; usually a data frame.
character; the set of dissimilarity coefficients for which rank correlations with gradient distance are to be computed.
character; the correlation method to use. See the method argument of cor.
method
cor
an object of class "rankDC".
"rankDC"
NULL; ignored, only present for purposes of conformance to generic definition.
logical; should observations be sorted prior to plotting? If so, should they be sorted in order of decreasing size?
The x-axis label for the plot.
arguments passed to dotchart.
dotchart
arguments passed to other methods, including dotchart and dotplot.
dotplot
Gavin L. Simpson, based on rankindex from the vegan package.
rankindex
rankindex from package vegan. For the dotplot method, see dotplot.
data(swappH) data(swapdiat) rc <- rankDC(swappH, swapdiat, dc = c("chord","euclidean","gower")) ## base plot uses dotchart() plot(rc) ## lattice version of the base plot dotplot(rc)
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