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Between Individual Distance Plot

Source: R/plot_distance_graph.R
plot_distance_graph.Rd

Plot pair-wise distances between individuals as line segments.

Usage

plot_distance_graph(D, idx = 1:dim(as.matrix((D)))[1])

Arguments

D

distance matrix, should be of class 'dist' or compatible class

idx

an integer sequence defining which individuals should be compared

Value

No value is returned.

Details

By default all individuals are plotting on the same axis. When there are more than about 10 individuals, the plot can become quite messy. See examples below for ideas.

References

https://casoilresource.lawr.ucdavis.edu/

See also

sp2

Author

Dylan E Beaudette

Examples


data(sp2)
depths(sp2) <- id ~ top + bottom
d <- NCSP(
  sp2,
  vars = c('prop', 'field_ph', 'hue', 'value'),
  maxDepth = 100,
  k = 0.01
)
#> Computing dissimilarity matrices from 18 profiles
#>  [0.4 Mb]
#> cache: 48 | slices: 100

par(mfcol=c(3,1), mar=c(2.5,4.5,1,1))
plot_distance_graph(d, idx=1:6)
plot_distance_graph(d, idx=7:12)
plot_distance_graph(d, idx=12:18)