UniFrac.multi: Run 'UniFrac' multiple times in parallel and take the average

In Russel88/MicEco: Various functions for microbial community data

Run UniFrac multiple times in parallel and take the average

Description

With unrooted phylogenies UniFrac sets the root randomly on the tree. The position of the root affects the results. The function runs UniFrac multiple times, with different roots, and takes the average to smooth potential bias.

Usage

UniFrac.multi(physeq, R = 100, seed = 42, cores = 1, ...)

Arguments

physeq	Phyloseq object. Required
R	Number of times to repeat calculation. Default 100
seed	Random seed for reproducibility. Default 42
cores	Number of cores to use for parallel computing. Default 1 aka not parallel
...	Additional arguments passed to the UniFrac function

Value

A distance object with the average UniFrac distances

Russel88/MicEco documentation built on Nov. 24, 2022, 2:33 a.m.