List of distance method keys supported in distance

Description

Distance methods should be specified by exact string match. Cannot do partial matching for all options, because too many similar options in downstream method dispatch.

Usage

distanceMethodList

Format

A list of character vectors. Every entry specifies a supported distance method. Names in the list indicate which downstream function is being utilized for further details. Same functions are linked in the itemized list below.

unifrac

UniFrac

wunifrac

UniFrac

dpcoa

DPCoA

jsd

JSD

manhattan

vegdist

euclidean

vegdist

canberra

vegdist

bray

vegdist

kulczynski

vegdist

jaccard

vegdist

gower

vegdist

altGower

vegdist

morisita

vegdist

horn

vegdist

mountford

vegdist

raup

vegdist

binomial

vegdist

chao

vegdist

cao

vegdist

w

betadiver

-

betadiver

c

betadiver

wb

betadiver

r

betadiver

I

betadiver

e

betadiver

t

betadiver

me

betadiver

j

betadiver

sor

betadiver

m

betadiver

-

betadiver

co

betadiver

cc

betadiver

g

betadiver

-

betadiver

l

betadiver

hk

betadiver

rlb

betadiver

sim

betadiver

gl

betadiver

z

betadiver

maximum

dist

binary

dist

minkowski

dist

ANY

designdist

See Also

distance

Examples

distanceMethodList

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(phyloseq)
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/phyloseq/distanceMethodList.Rd_%03d_medium.png", width=480, height=480)
> ### Name: distanceMethodList
> ### Title: List of distance method keys supported in 'distance'
> ### Aliases: distanceMethodList
> ### Keywords: datasets
> 
> ### ** Examples
> 
> distanceMethodList
$UniFrac
[1] "unifrac"  "wunifrac"

$DPCoA
[1] "dpcoa"

$JSD
[1] "jsd"

$vegdist
 [1] "manhattan"  "euclidean"  "canberra"   "bray"       "kulczynski"
 [6] "jaccard"    "gower"      "altGower"   "morisita"   "horn"      
[11] "mountford"  "raup"       "binomial"   "chao"       "cao"       

$betadiver
 [1] "w"   "-1"  "c"   "wb"  "r"   "I"   "e"   "t"   "me"  "j"   "sor" "m"  
[13] "-2"  "co"  "cc"  "g"   "-3"  "l"   "19"  "hk"  "rlb" "sim" "gl"  "z"  

$dist
[1] "maximum"   "binary"    "minkowski"

$designdist
[1] "ANY"

> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>