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Maps of 'Xeno-Canto' recordings by species

Source: R/xc_maps.R
map_xc.Rd

map_xc creates maps to visualize the geographic spread of 'Xeno-Canto' recordings.

Usage

map_xc(X, img = TRUE, it = "jpeg", res = 100, labels = FALSE,
 path = NULL, leaflet.map = FALSE,
 leaflet.cluster = FALSE)

Arguments

X

Data frame output from query_xc.

img

A logical argument specifying whether an image file of each species map should be returned, default is TRUE.

it

A character vector of length 1 giving the image type to be used. Currently only "tiff" and "jpeg" are admitted. Default is "jpeg".

res

Numeric argument of length 1. Controls image resolution. Default is 100 (faster) although 300 - 400 is recommended for publication/ presentation quality.

labels

A logical argument defining whether dots depicting recording locations are labeled. If TRUE then the Recording_ID is used as label.

path

Character string with the directory path where the image files will be saved. If NULL (default) then the current working directory is used. Ignored if img = FALSE.

leaflet.map

Logical to control whether the package 'leaflet' is used for displaying the maps. 'leaflet' maps are interactive and display information about recordings and links to the Xeno-Canto website. If TRUE a single map is displayed regardless of the number of species and all other image related arguments are ignored. Default is FALSE. The hovering label shows the species scientific name (or the subspecies if only 1 species is present in 'X'). Note that colors will be recycled if more after 18 species (or subspecies).

leaflet.cluster

Logical to control if icons are clustered by locality (as in Xeno-Canto maps). Default is FALSE.

Value

A map of 'Xeno-Canto' recordings per species (image file), or a faceted plot of species map(s) in the active graphic device.

Details

This function creates maps for visualizing the geographic spread of recordings from the open-access online repository Xeno-Canto. The function takes the output of query_xc as input. Maps can be displayed in the graphic device (or Viewer if 'leaflet.map = TRUE') or saved as images in the working directory. Note that only recordings with geographic coordinates are displayed.

References

Araya-Salas, M., & Smith-Vidaurre, G. (2017). warbleR: An R package to streamline analysis of animal acoustic signals. Methods in Ecology and Evolution, 8(2), 184-191.

Author

Marcelo Araya-Salas (marcelo.araya@ucr.ac.cr) and Grace Smith Vidaurre

Examples

if (FALSE) {
# search in xeno-canto
X <- query_xc("Phaethornis anthophilus", download = FALSE)

# create image in R graphic device
map_xc(X, img = FALSE)

# create leaflet map
map_xc(X, leaflet.map = TRUE)
}