Plots time slice map of a spatio-temporal model from estimateMap3D() function

Usage

plotMap3D(
  model,
  time,
  IndSelect = NULL,
  estType = "Mean",
  estQuantile = 0.9,
  points = TRUE,
  pointSize = 1,
  StdErr = Inf,
  rangex = range(model$data$Longitude, na.rm = TRUE),
  rangey = range(model$data$Latitude, na.rm = TRUE),
  rangez = NULL,
  contourType = c("filled.contour", "contour"),
  limitz = "none",
  centerMap = "Europe",
  addU = 0,
  pointShape = 4,
  pColor = "#000000",
  colorsP = NULL,
  showModel = TRUE,
  textLabels = NULL,
  pointLabels = NULL,
  pointColLabels = NULL,
  fontSize = 11,
  mask = FALSE,
  maskRadius = 100,
  showScale = TRUE,
  fontType = "sans",
  fontCol = "black",
  resolution = 100,
  interior = TRUE,
  ncol = 10,
  colors = "RdYlGn",
  reverseColors = FALSE,
  dataCenter = NULL,
  RadiusBatch = 100,
  terrestrial = 1,
  grid = TRUE,
  arrow = TRUE,
  scale = TRUE,
  titleMain = TRUE,
  titleScale = TRUE,
  setAxisLabels = FALSE,
  mainLabel = "",
  yLabel = "Latitude",
  xLabel = "Longitude",
  scLabel = "",
  northSize = 0.2,
  scalSize = 0.1,
  scaleX = 0,
  scaleY = 0.1,
  NorthX = 0.025,
  NorthY = 0.925,
  AxisSize = 1,
  AxisLSize = 1,
  cluster = FALSE,
  clusterAll = "0",
  clusterResults = 0,
  clusterCol = "Set1",
  pointDat = NULL,
  plotRetNull = FALSE
)

Arguments

model: return object of a spatio-temporal model from estimateMap3D() function
time: time slice value for map
IndSelect: for categorical model: selected category
estType: one of "Mean", "SE" and "Quantile". defaults to "Mean"
estQuantile: quantile (only applicable if estType = "Quantile")
points: show points on map TRUE/FALSE
pointSize: point size (if points = TRUE)
StdErr: maximum standard error to which estimates are displayed
rangex: range of longitude values (x axis limits)
rangey: range of latitude values (y axis limits)
rangez: range of estimated values (z axis limits)
contourType: one of "filled.contour" or "contour"
limitz: restrict range of z (possible values "0-1", "0-100")
centerMap: center of map, one of "Europe" and "Pacific"
addU: numeric: years of added uncertainty for time sliced 2D-convex hull
pointShape: pch shape of location marks
pColor: color of location marks drawn
colorsP: color scale of location marks
showModel: show model
textLabels: text labels
pointLabels: point size labels
pointColLabels: point colour labels
fontSize: font size
mask: boolean: Show output within range of points
maskRadius: numeric: Show output within range of points in km
showScale: show colour scale
fontType: font type
fontCol: font color
resolution: spatial grid resolution of displayed (higher is slower but better quality)
interior: show only convex hull 0 "none", 1 "3D", 2 "time sliced 2D"
ncol: number of colors for estimates
colors: color scheme of estimates from RColorBrewer. defaults to "RdYlGn"
reverseColors: inverse colour scheme
dataCenter: optional data.frame with three columns (longitude / latitude / time)
RadiusBatch: radius of batch spatial point estimates
terrestrial: show only estimates on land masses (1), oceans (-1) or all (0)
grid: show coordinate grid TRUE/FALSE
arrow: display north arrow TRUE/FALSE
scale: display scale TRUE/FALSE
titleMain: show main title
titleScale: show scale title
setAxisLabels: show axis/main/scale labels
mainLabel: main label
yLabel: y lab label
xLabel: y lab label
scLabel: scale lab label
northSize: size of north arrow
scalSize: size of scale
scaleX: scale x orientation
scaleY: scale y orientation
NorthX: north arrow x orientation
NorthY: north arrow y orientation
AxisSize: axis title font size
AxisLSize: axis label font size
cluster: show clusters
clusterAll: show all cluster points
clusterResults: temporal groups or spatial clusters
clusterCol: Cluster colors
pointDat: data frame of points to add to plot
plotRetNull: return predictions