get_dist {MicrobiotaProcess}R Documentation

calculate distance

Description

calculate distance

Usage

get_dist(obj, ...)

## S3 method for class 'data.frame'
get_dist(
  obj,
  distmethod = "euclidean",
  taxa_are_rows = FALSE,
  sampleda = NULL,
  tree = NULL,
  method = "hellinger",
  ...
)

## S3 method for class 'phyloseq'
get_dist(obj, distmethod = "euclidean", method = "hellinger", ...)

Arguments

obj

phyloseq, phyloseq class or data.frame nrow sample * ncol feature.

...,

additional parameters.

distmethod

character, default is "euclidean", see also distanceMethodList

taxa_are_rows

logical, default is FALSE.

sampleda

data.frame, nrow sample * ncol factors.

tree

object, the phylo class, see also as.phylo.

method

character, default is hellinger, see alse decostand

Value

distance class contianed distmethod and originalD attr

See Also

distance

Examples

data(test_otu_data)
distclass <- get_dist(test_otu_data)
hcsample <- get_clust(distclass)

[Package MicrobiotaProcess version 1.2.2 Index]