get_dist: calculate distance

View source: R/method-mp_cal_dist.R

get_distR 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

## Not run: 
data(test_otu_data)
test_otu_data %<>% as.phyloseq()
distclass <- get_dist(test_otu_data)
hcsample <- get_clust(distclass)

## End(Not run)

xiangpin/MicrobiotaProcess documentation built on July 24, 2024, 11:44 p.m.