getYCTheta: Yue and Clayton Measure of Dissimilarity
In RIVM-IIV-Microbiome/biomeUtils: Utilities for microbiome analytics
getYCTheta R Documentation
Yue and Clayton Measure of Dissimilarity
Description
Yue and Clayton Measure of Dissimilarity
Arguments
x
A phyloseq object or a data.frame with taxa-columns and samples-rows
Details
Calculates Yue and Clayton measure of dissimilarity between samples.
It considers total number of taxa between two samples and the
relative abundance of each taxa.
Value
Object of class dist
Author(s)
Sudarshan A. Shetty
References
Yue, Jack C., and Murray K. Clayton. 2010. A similarity measure
based on species proportions.
Communications in Statistics-theory and Methods, 34(11), pp.2123-2131.
https://doi.org/10.1080/STA-200066418
Dixon, P 2003. VEGAN, a package of R functions for community ecology.
Journal of Vegetation Science, 14(6), pp.927-930.
https://doi.org/10.1111/j.1654-1103.2003.tb02228.x
Examples
library(biomeUtils)
data("FuentesIliGutData")
yc.dis <- getYCTheta(FuentesIliGutData)
#yc.dis[1:3,1:4]
RIVM-IIV-Microbiome/biomeUtils documentation built on July 20, 2023, 10:29 a.m.
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| getYCTheta | R Documentation |
Yue and Clayton Measure of Dissimilarity
Description
Yue and Clayton Measure of Dissimilarity
Arguments
x |
A phyloseq object or a data.frame with taxa-columns and samples-rows |
Details
Calculates Yue and Clayton measure of dissimilarity between samples. It considers total number of taxa between two samples and the relative abundance of each taxa.
Value
Object of class dist
Author(s)
Sudarshan A. Shetty
References
Yue, Jack C., and Murray K. Clayton. 2010. A similarity measure based on species proportions. Communications in Statistics-theory and Methods, 34(11), pp.2123-2131. https://doi.org/10.1080/STA-200066418 Dixon, P 2003. VEGAN, a package of R functions for community ecology. Journal of Vegetation Science, 14(6), pp.927-930. https://doi.org/10.1111/j.1654-1103.2003.tb02228.x
Examples
library(biomeUtils)
data("FuentesIliGutData")
yc.dis <- getYCTheta(FuentesIliGutData)
#yc.dis[1:3,1:4]
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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