networkTempBetaDiv.master: TAXONOMIC BETA-DIVERSITY FUNCTION FOR PIXEL BY SPP MATRICES

In CeresBarros/ToolsCB: Ceres's Useful R Functions

TAXONOMIC BETA-DIVERSITY FUNCTION FOR PIXEL BY SPP MATRICES

Description

calculates beta diversity as the spp turnover between pairs of networks defined in two pixel by species matrices (containing species presences absences from networks in each pixel). Comparisons are made per pixel, between the two matrices, belonging from two different points in time, or two scenarios.

Usage

networkTempBetaDiv.master(pixXsppMat1, pixXsppMat2, method = "all")

Arguments

pixXsppMat1	is a data.table of pixel id's (column "PAGENAME") and species (other columns) filled with 0s (absences from pixel network) and 1s (presences in pixel network)
pixXsppMat2	same as pixXsppMat1. The network compositions to be compared with pixXsppMat1
method	is the method used to calculate beta diversity. Options are Sorensen's ("sorensen") and Simpson's ("simpson") beta-diversity and their nested component ("nested") (see Baselga 2010), the Jaccard dissimilarity index ("jaccard"), a multiplicative decomposition of alpha/gamma diversity (where alpha and gamma are calculated as inverse-Simpson; "decompSimpson"), all options ("all"), or any combination of them. Options "sorensen", "simpson", "nested", "jaccard", "decompSimpson" calculate species beta-diversity (i.e., turnover). Defaults to "all"

Value

a data.table of beta-diversity indices per pixel ID (column "PAGENAME")

CeresBarros/ToolsCB documentation built on Aug. 23, 2024, 4:22 p.m.