dist.unifrac: Calculate weighted or unweighted UniFrac distances. Adopted...
In MadsAlbertsen/ampvis2: Tools for visualising amplicon data

dist.unifrac

R Documentation

Calculate weighted or unweighted UniFrac distances. Adopted from fastUniFrac() from phyloseq

Calculate weighted or unweighted UniFrac distances. Adopted from fastUniFrac() from phyloseq

dist.unifrac(abund, tree, weighted = FALSE, normalise = TRUE, num_threads = 1L)

`abund`	Abundance table with OTU counts, in `ampvis2` objects it is available with simply data$abund
`tree`	Phylogenetic tree (rooted and with branch lengths) as loaded with `read.tree`.
`weighted`	Calculate weighted or unweighted UniFrac distances.
`normalise`	Should the output be normalised such that values range from 0 to 1 independent of branch length values? Note that unweighted UniFrac is always normalised. (default: `TRUE`)
`num_threads`	The number of threads to be used for calculating UniFrac distances. If set to more than `1` then this is set by using `registerDoParallel`. (default: `1`)