PlotBest.mdist: Dotchart which reflects the "best" of non-base distances

In shipunov: Miscellaneous Functions from Alexey Shipunov

Dotchart which reflects the "best" of non-base distances

Description

Plots dotchart which shows correspondences between data and various non-base distances

Usage

PlotBest.mdist(data, distances=c("manhattan", "euclidean", "canberra",
"clark",  "bray", "kulczynski", "jaccard", "gower", "altGower",
"morisita", "horn", "binomial",  "chao", "cao", "mahalanobis",
"cor.pearson", "cor.spearman", "cor.kendall",  "gower_dist",
"simple_match_dist", "daisy.gower", "smirnov"),
binary.only=FALSE)

Arguments

data	Data frame with values
distances	Distances to use
binary.only	Use binary only distances?

Details

Shows the "best" distance method using many non-base distances from several packages (namely, "cluster", "smirnov" and "vegan" – but does not include "mountford" and "raup" as they are very special). Please note that this is a mere visualization, and numbers are used only to understand the relative correspondence between raw data and distances.

Uses maximal correlations between multidimensional scaling of distance object (converted internally to Euclidean) and PCA of data. Both MDS and PCA use two dimensions.

Author(s)

Alexey Shipunov

See Also

PlotBest.dist

Examples

PlotBest.mdist(iris[, -5])

m1 <- t((moldino > 0) * 1)
PlotBest.mdist(m1, binary.only=TRUE)

shipunov documentation built on Feb. 16, 2023, 9:05 p.m.