calcFrPrp: Calculate evolutionary distinctness

In ropensci/phylotaR: Automated Phylogenetic Sequence Cluster Identification from 'GenBank'

Calculate evolutionary distinctness

Description

Returns the evolutationary distinctness of ids using the fair proportion metric.

Usage

calcFrPrp(tree, tids, progress = "none")

Arguments

tree	TreeMan object
tids	tip IDs
progress	name of the progress bar to use, see create_progress_bar

Details

The fair proportion metric calculates the evolutionary distinctness of tips in a tree through summing the total amount of branch length each tip represents, where each branch in the tree is evenly divided between all descendants. Parallelizable.

References

Isaac, N.J.B., Turvey, S.T., Collen, B., Waterman, C. and Baillie, J.E.M. (2007). Mammals on the EDGE: conservation priorities based on threat and phylogeny. PLoS ONE, 2, e296.

See Also

calcPhyDv, calcPrtFrPrp, https://github.com/DomBennett/treeman/wiki/calc-methods

Examples

tree <- randTree(10)
calcFrPrp(tree, tree["tips"])

ropensci/phylotaR documentation built on July 9, 2023, 3:17 p.m.