oldfield: Phylogeny and community data from an Oldfield ecosystem in...

In daijiang/phyr: Model Based Phylogenetic Analysis

Phylogeny and community data from an Oldfield ecosystem in Southern Ontario, Canada

Description

A list containing a phylogeny for XX species of Oldfield forbs, as well as a presence / absence dataset for their occurrence across several locations in Southern Ontario see Dinnage (2009) for details. Sites each had two plots which experienced a different treatment each; either they has been disturbed (ploughed 1 or 2 years previously), or they were a control plot (undisturbed in recent records).

Usage

oldfield

Format

A list with two elements:

phy

A phylogeny in ape's phy format

data

A data.frame containing data on the occurrence of the species in phy

oldfield$data is a data.frame with 1786 rows, and the following 7 columns:

site_orig

integer. Site ID number.

habitat_type

character. Plot treatment: disturbed or undisturbed.

sp

character. Species name using underscore to separate binomial names (to match phylogeny).

abundance

integer. Recorded abundance of species in plot.

disturbance

integer. Whether the plot was disturbed or not. 0 or 1. 0 for undisturbed, 1 for disturbed

site_orig

character. A unique site descriptor concatenating the site number with the disturbance treatment.

pres

integer. Species presence or absence in plot. 0 or 1. 0 for absent, 1 for present

daijiang/phyr documentation built on Feb. 25, 2024, 3:01 a.m.