beta_dis: Beta dissimilarity
In hilldiv: Integral Analysis of Diversity Based on Hill Numbers

Description Usage Arguments Details Author(s) References See Also Examples

Compute dissimilarity or similarity values based on beta diversities (neutral or phylogenetic) and sample size.

1	beta_dis(beta, qvalue, N, metric, type)

`beta`	A numeric beta diversity value or an object outputted by function div_part() (which contains all the information to compute (dis)similarities).
`qvalue`	A positive number, usually between 0 and 5, but most commonly 0, 1 or 2. It can be an integer or contain decimals.
`N`	An integer indicating sample size, the number of sampling units to be used to compute the (dis)similarity measures. The argument is ovewritten if a 'div_part' object is used.
`metric`	A vector containing "C", "U", "V" or "S". C: Sørensen-type overlap or complement. U: Jaccard-type overlap or complement. V: Sørensen-type turnover or complement. S: Jaccard-type turnover or complement. See hilldiv wiki for further information.
`type`	A character object containing either "similarity" or "dissimilarity". If 'similarity' is used, similarity metrics (0: completely different composition - 1: identical composition) are returned. If 'dissimilarity' is used, dissimilarity metrics (0: identical composition - 1:completely different composition) are returned.

(Dis)similarity computation from beta diversities based on Hill numbers

Antton Alberdi, anttonalberdi@gmail.com

Alberdi, A., Gilbert, M.T.P. (2019). A guide to the application of Hill numbers to DNA-based diversity analyses. Molecular Ecology Resources, 19, 804-817.

Chao, A., Chiu, C.H., & Hsieh, T. C. (2012). Proposing a resolution to debates on diversity partitioning. Ecology, 93, 2037-2051.

Jost, L. (2007). Partitioning diversity into independent alpha and beta components. Ecology, 88, 2427-2439.

div_part, gamma_div, pair_dis

data(bat.diet.otutable)
data(bat.diet.tree)
#Manually indicating beta diversity, order of diversity and sample size
beta_dis(beta=4.5,qvalue=1,N=8)
beta_dis(beta=4.5,qvalue=1,N=8,metric="C",type="similarity")
#Using an object created with the function div_part()
divpartobject <- div_part(bat.diet.otutable,qvalue=0,tree=bat.diet.tree)
beta_dis(divpartobject)
beta_dis(divpartobject,metric="S",type="similarity")