data.inc: Species-by-site raw incidence data

In KaiHsiangHu/iNEXT3D: Interpolation and Extrapolation for Species Diversity in three dimensions

Description

This data set consists of the species-by-site raw incidence (detection/non-detection) matrix and the phylogenetic tree of 41 bird species collected in November 2012 at Barrington Tops National Park, Australia from two sites: the North Site (27 species from nT = 12 point counts) and the South Site (38 species from nT = 17 point counts). Each point count is regarded as a sampling unit in which species incidence (detection or non-detection) is recorded. See the vignette for part of the data in the required input format, and Chao et al. (2015) for the statistical analysis of this data set.

Usage

data(data.inc)

Format

A list includes three objects:

$data

a data frame with species-by-site raw incidence records for 41 species.

$tree

a phylo object giving the phylogenetic tree in Newick format.

$nT

a vector giving the numbers of sampling units in all sites.

Source

Chao, A., Chiu, C.-H., Hsieh, T. C., Davis, T., Nipperess, D., and Faith, D. (2015). Rarefaction and extrapolation of phylogenetic diversity. Methods in Ecology and Evolution, 6, 380-388.

KaiHsiangHu/iNEXT3D documentation built on July 18, 2021, 8:11 p.m.