sumStatsTopo: Topological summary statistics

In ilajaait/deephylo: Infer Parameters from Phylogenies with Deep-Learning

Topological summary statistics

Description

There are 8 topological summary statistics listed below.

Variable	Description
colless	absolute difference in left and right tips, summed over int. nodes
sackin	depth summed over tips
widthdepth	ratio of maximal width over maximal depth
deltaw	maximal consecutive width difference
maxladder	maximal ladder size
inladder	proportion of nodes in ladder
imbalance	proportion of imbalanced nodes (i.e. colless !=0)
stair	ratio of tips on each side summed over internal nodes

Usage

sumStatsTopo(phylo, df.nodes)

Arguments

phylo	phylogeny (ape format)
df.nodes	dataframe

Value

list the variable listed above can be accessed with $ + variable name.

See Also

Saulnier et al., 2014, PLOS

ilajaait/deephylo documentation built on April 10, 2022, 11:03 a.m.