Description Usage Arguments Value Author(s) Examples
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.
1 | SimilarityPair(X, datatype = c("abundance", "incidence"), nboot = 200)
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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. |
include two communities data summary and the various similarity indice estimation
Anne Chao, K. H. Ma and T. C. Hsieh
1 2 3 4 | data(TwoComSimDemoAbu)
SimilarityPair(TwoComSimDemoAbu, datatype="abundance")
data(TwoComSimDemoInci)
SimilarityPair(TwoComSimDemoInci,datatype="incidence")
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