mexdolphin {inlabru} | R Documentation |
Pan-tropical spotted dolphins in the Gulf of Mexico
Description
This a version of the mexdolphins
dataset from the package dsm
, reformatted
as point process data for use with inlabru
. The data are from a combination of several NOAA
shipboard surveys conducted on pan-tropical spotted dolphins in the Gulf of Mexico. 47 observations
of groups of dolphins were detected. The group size was recorded, as well as the Beaufort sea state at
the time of the observation. Transect width is 16 km, i.e. maximal detection
distance 8 km (transect half-width 8 km).
Usage
mexdolphin
Format
A list of objects:
points
:A
SpatialPointsDataFrame
object containing the locations of detected dolphin groups, with their size as an attribute.samplers
:A
SpatialLinesDataFrame
object containing the transect lines that were surveyed.mesh
:An
inla.mesh
object containing a Delaunay triangulation mesh (a type of discretization of continuous space) covering the survey region.ppoly
:An
SpatialPolygonsDataFrame
object defining the boundary of the survey region.simulated
:A
SpatialPointsDataFrame
object containing the locations of a simulated population of dolphin groups. The population was simulated from ainlabru
model fitted to the actual survey data. Note that the simulated data do not have any associated size information.
Source
Library dsm
.
References
Halpin, P.N., A.J. Read, E. Fujioka, B.D. Best, B. Donnelly, L.J. Hazen, C. Kot, K. Urian, E. LaBrecque, A. Dimatteo, J. Cleary, C. Good, L.B. Crowder, and K.D. Hyrenbach. 2009. OBIS-SEAMAP: The world data center for marine mammal, sea bird, and sea turtle distributions. Oceanography 22(2):104-115
NOAA Southeast Fisheries Science Center. 1996. Report of a Cetacean Survey of Oceanic and Selected Continental Shelf Waters of the Northern Gulf of Mexico aboard NOAA Ship Oregon II (Cruise 220)
Examples
if (require("ggplot2", quietly = TRUE)) {
data(mexdolphin, package = "inlabru")
ggplot() +
gg(mexdolphin$mesh) +
gg(mexdolphin$ppoly, color = "blue") +
gg(mexdolphin$samplers) +
gg(mexdolphin$points, aes(size = size), color = "red") +
coord_equal()
ggplot() +
gg(mexdolphin$mesh, col = mexdolphin$lambda, mask = mexdolphin$ppoly) +
coord_equal()
}
## Not run:
if (requireNamespace("ggmap", quietly = TRUE) &&
require("ggplot2", quietly = TRUE)) {
gmap(mexdolphin$depth) +
gm(mexdolphin$ppoly, color = "blue") +
gm(mexdolphin$samplers) +
gm(mexdolphin$points, aes(size = size), color = "red")
gmap(mexdolphin$depth) +
gm(mexdolphin$depth, aes(col = depth)) +
gm(mexdolphin$ppoly)
}
## End(Not run)