distance

distance

This page will show a description and example graphics using the distance() function in phyloseq.

The distance function takes a data object (phyloseq-class) and method option (character string), and returns a distance object (dist-class) suitable for certain ordination methods and other distance-based analyses. There are currently 44 explicitly supported method options, as well as user-provided arbitrary methods via an interface to designdist. For the complete list of currently supported options/arguments to the method parameter, type distance("list") at the command-line. Only sample-wise distances are currently supported (the type argument), but eventually species-wise (OTU-wise) distances will be supported as well.