plot_mask: Plot a gibbonsecr mask

In dkidney/gibbonsecr: SECR Analysis for Acoustic Gibbon Surveys

Description

Plotting functions for gibbonsecr mask objects. The plot method is a wrapper for plot.mask and geom_mask is a wrapper for geom_point (or geom_contour when contour = TRUE)

Usage

## S3 method for class 'gmask'
plot(x, covariate = NULL, sessions = NULL, ...)

geom_mask(x, covariate = NULL, sessions = NULL, contour = FALSE, ...)

Arguments

x	a gmask object
covariate	name of covariate to use for colouring
sessions	sessions to plot (as integer indices, logical indices or session names)
...	additional arguments to pass to plot.mask or geom_point
contour	if TRUE, contour lines will be plotted

Author(s)

Darren Kidney [e-mail]

See Also

plot.gcapthist

Examples

## Not run: 

data(N.annamensis)
mask = N.annamensis.mask
capthist = N.annamensis.capthist

# plot methods -----------------------------------------------------------------

par(mar = c(2,2,1,1))

plot(mask)
points(capthist, cex = 0.5)

plot(mask, covariate = "x", legend = FALSE)
points(capthist, cex = 0.5)

plot(mask, covariate = "y", legend = FALSE)
points(capthist, cex = 0.5)

plot(mask, covariate = "habitat", legend = FALSE)
points(capthist, cex = 0.5)

# ggplot methods ---------------------------------------------------------------

library(ggplot2)

ggplot() + coord_fixed() +
    geom_mask(mask) +
    geom_capthist(capthist) +
    labs(x = "Longitude", y = "Latitude")

ggplot() + coord_fixed() +
    geom_mask(mask, covariate = "x") +
    geom_capthist(capthist) +
    scale_fill_distiller(palette = "Spectral") +
    labs(x = "Longitude", y = "Latitude", fill = "Longitude")

ggplot() + coord_fixed() +
    geom_mask(mask, covariate = "y") +
    geom_capthist(capthist) +
    scale_fill_distiller(palette = "Spectral") +
    labs(x = "Longitude", y = "Latitude", fill = "Latitutde")

ggplot() + coord_fixed() +
    geom_mask(mask, covariate = "habitat") +
    geom_capthist(capthist) +
    scale_fill_manual(values = c("darkgreen", "lightgreen")) +
    labs(x = "Longitude", y = "Latitude", fill = "habitat")

## End(Not run)

dkidney/gibbonsecr documentation built on May 15, 2019, 9:11 a.m.