cor_common_nodes: Proportion of commong nodes between two trees

In dendextend: Extending 'dendrogram' Functionality in R

Proportion of commong nodes between two trees

Description

Calculates the number of nodes, in each tree, that are common (i.e.: that have the same exact list of labels). The correlation is between 0 (actually, 2*(nnodes-1)/(2*nnodes), for two trees with the same list of labels - since the top node will always be identical for them). Where 1 means that every node in the one tree, has a node in the other tree with the exact same list of labels. Notice this measure is non-parameteric (it ignores the heights and relative position of the nodes).

Usage

cor_common_nodes(dend1, dend2, ...)

Arguments

dend1	a dendrogram.
dend2	a dendrogram.
...	not used.

Value

A correlation value between 0 to 1 (almost identical trees)

See Also

distinct_edges, cor.dendlist

Examples

set.seed(23235)
ss <- sample(1:150, 10)
hc1 <- iris[ss, -5] %>%
  dist() %>%
  hclust("com")
hc2 <- iris[ss, -5] %>%
  dist() %>%
  hclust("single")
dend1 <- as.dendrogram(hc1)
dend2 <- as.dendrogram(hc2)

cor_cophenetic(dend1, dend2)
cor_common_nodes(dend1, dend2)
tanglegram(dend1, dend2)
# we can see we have only two nodes which are different...

dendextend documentation built on Oct. 13, 2024, 1:06 a.m.