or.glmer: Odds ratio calculation using mixed models

In mjwestgate/sppairs: Species Pairwise Association Analysis (SPAA)

Description

Calculate asymmetric odds ratio using logistic regression. Random effects must be specified, used e.g. to account for multiple visits to the same site (using glmer in lme4). Also called by spaa().

Usage

or.glmer(dataset, random.effect, complex)

Arguments

dataset	Two column data.frame containing species occurrence. Note that first column is species A and second species B, where A is the species subject to investigation (i.e. does p/a of B affect A?)
random.effect	a factor to be used as random effect in glmer(lme4)
complex	logical, defaulting to FALSE. If true, or.glmer returns details of the model (slope and intercept) used to calculate each odds ratio, and the proportion of rows at which species B is present, as well as the odds ratio. Note that this may lead to incompatability with summary or plot methods as currently implemented - only recommended for evaluation purposes.

Value

value of the odds ratio between those species

mjwestgate/sppairs documentation built on May 23, 2019, 1:05 a.m.