SimilarityPair: Etimation of two-community similarity index

In JohnsonHsieh/SpadeR: Species Prediction and Diversity Estimation with R

Description

SimilarityPair This part features various similarity indices for comparing data from two assemblages based on either multiple-sample incidence data or abundance data. The incidence-based indices include the classic Jaccard, Sorensen and Lennon et al. (2001) indices, and the abundance-based indices include the Bray-Curtis, Morisita-Horn, Horn and two newly developed abundance-based Jaccard and Sorensen indices.

Usage

SimilarityPair(X, datatype = c("abundance", "incidence"), nboot = 200)

Arguments

X	a matrix of species sample frequencies (for abundance data), or incidence-based sample frequencies (1st row must be the number of sampling unit) for two communities.
datatype	a character of data type,"abundance" or "incidence".
nboot	the number of bootstrap resampling times, default is 200.

Value

include two communities data summary and the various similarity indice estimation

Author(s)

Anne Chao, K. H. Ma and T. C. Hsieh

Examples

data(TwoComSimDemoAbu)
SimilarityPair(TwoComSimDemoAbu, datatype="abundance")
data(TwoComSimDemoInci)
SimilarityPair(TwoComSimDemoInci,datatype="incidence")

JohnsonHsieh/SpadeR documentation built on May 7, 2019, 12:02 p.m.