R: Proportion of commong nodes between two trees

cor_common_nodes {dendextend} | R Documentation

## 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...

[Package dendextend version 1.8.0 Index]