zetadiv: Functions to Compute Compositional Turnover Using Zeta Diversity

Functions to compute compositional turnover using zeta-diversity, the number of species shared by multiple assemblages. The package includes functions to compute zeta-diversity for a specific number of assemblages and to compute zeta-diversity for a range of numbers of assemblages. It also includes functions to explain how zeta-diversity varies with distance and with differences in environmental variables between assemblages, using generalised linear models, linear models with negative constraints, generalised additive models,shape constrained additive models, and I-splines.

AuthorGuillaume Latombe, Melodie A. McGeoch, David A. Nipperess, Cang Hui
Date of publication2016-12-09 08:58:59
MaintainerGuillaume Latombe <guillaume.latombe@monash.edu>
LicenseGPL-3
Version1.0

View on CRAN

Man pages

bird.env.coarse: South-East Australia Environmental Dataset at Coarse Scale

bird.env.fine: South-East Australia Environmental Dataset at Fine Scale

bird.spec.coarse: Australia Bird Atlas Species Occurrence Dataset at Coarse...

bird.spec.fine: Australia Bird Atlas Species Occurrence Dataset at Fine Scale...

glm.cons: Fitting Generalized Linear Models with constraint on the...

glm.fit.cons: Generalized Linear Models fitting method with negative...

Ispline: Transform data using I-splines

Marion.env: Marion Island Environmental Dataset

Marion.species: Marion Island Species Presence-Absence Dataset

pie.neg: Pie Chart, considering negative values as zeros

Plot.zeta.ddecay: Zeta distance-decay plotting

Plot.zeta.ddecays: Zeta distance-decay plotting for multiple orders

Plot.zeta.decline: Zeta diversity decline plotting

Plot.zeta.scale.min.dist: Plotting of zeta diversity scaling with sample grain...

Plot.zeta.scale.regular: Plotting of zeta diversity scaling with sample grain using...

Predict.msgdm: Predict zeta values for new environmental and distance data

rescale.min.dist: Rescaling of data based on the minimum distance between sites

rescale.regular: Rescaling of data following a hierarchical increase in grain...

Zeta.ddecay: Zeta distance decay for a specific number of assemblages or...

Zeta.ddecays: Zeta distance decay for a range of numbers of assemblages or...

Zeta.decline.ex: Expectation of zeta diversity decline

Zeta.decline.mc: Zeta diversity decline using Monte Carlo sampling

Zeta.msgdm: Multi-site generalised dissimilarity modelling for a set of...

Zeta.order.ex: Expectation of zeta diversity for a specific number of...

Zeta.order.mc: Zeta diversity for a specific number of assemblages or sites...

Zeta.sam.sensitivity: Sensitivity analysis for the sample size of zeta

Zeta.scale.min.dist: Zeta diversity scaling with sample grain dependency based on...

Zeta.scale.regular: Zeta diversity scaling with sample grain using hierarchical...

Zeta.varpart: Variation partitioning for zeta diversity

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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