plot_coef-commOccu-method: Plot effect sizes of covariates in community occupancy model

In camtrapR: Camera Trap Data Management and Preparation of Occupancy and Spatial Capture-Recapture Analyses

Plot effect sizes of covariates in community occupancy model

Description

Plot effect sizes for all species in a community (multi-species) occupancy model. Currently only supports continuous covariates, not categorical covariates.

Usage

## S4 method for signature 'commOccu'
plot_coef(
  object,
  mcmc.list,
  submodel = "state",
  ordered = TRUE,
  combine = FALSE,
  outdir,
  level = c(outer = 0.95, inner = 0.75),
  colorby = "significance",
  ...
)

Arguments

object	commOccu object
mcmc.list	mcmc.list. Output of fit called on a commOccu object
submodel	Submodel to get plots for. Can be "det" or "state"
ordered	logical. Order species in plot by median effect (TRUE) or by species name (FALSE)
combine	logical. Combine multiple plots into one (via facets)?
outdir	Directory to save plots to (optional)
level	Probability mass to include in the uncertainty interval (two values, second value - inner interval - will be plotted thicker)
colorby	Whether to color estimates by "significance" (of the effect estimates), or "Bayesian p-value" (of the species)
...	additional arguments for ggsave

Value

list of ggplot objects

camtrapR documentation built on May 11, 2022, 5:18 p.m.