Summarize dispersion of tree distances within and between samples

Source: R/TreeAnalyses.R

Computes within- and between-sample tree distance summaries, including nearest-neighbour distances, mean minimum spanning tree edge length, median distances, and silhouette width, for a distance matrix computed by TreeDistances.

Dispersion(d)

Arguments

d

A distance matrix, typically the output of TreeDistances.

Value

'Dispersion()' returns a list with elements:

  • treePairs: a data frame of pairwise distances and comparison type ("1 vs 1", "1 vs 2", or "2 vs 2");

  • spread: a matrix summarising mean nearest-neighbour and MST edge lengths, and median distances per run;

  • mdmd: the median-to-median distance between the two runs;

  • sil: the average silhouette width.

See also

Other tree-comparisons: PrecisionIncrease(), TreeDistances(), TreeLengths()