dDivgeomap: Plot diversity plot in a biodiversity geographic map.

In xinghuq/HierDmap: Visualizing the geo-biodiversity profiles and the hierarchical structure of biodiversity

Plot diversity plot in a biodiversity geographic map.

Description

The density of biodiversity in geographic map.

Usage

dDivgeomap(data, x, y, label,
border_colour = NA, border_fill = "antiquewhite",
density_alpha = I(0.2), density_fill, density_size = 1, 
bins = 5, geom = "polygon", point_color = "red", pointalpha = 0.2, pointsize, ...)

Arguments

data	A data frame contains the longitute, latitude, and diversities of each location.
x	The longitude of the sampling location
y	The latitude of the sampling location
label	The locations(sites or population) that will be ploted
border_colour	The colour of the border of geographic map
border_fill	Geographic map border
density_alpha	The density plot argument passing to stat_density_2d
density_fill	The density plot argument passing to stat_density_2d
density_size	The density plot argument passing to stat_density_2d
bins	The density plot argument passing to stat_density_2d
geom	The density plot argument passing to stat_density_2d
point_color	The diversity point color
pointalpha	The diversity ponit parameter passing to geom_point()
pointsize	The point size used to indicate the (relative) size of diversity values
...	other arguments passing to ggplot.

Details

There are four ways of plotting geographic map in this package. "dDiversity" uses ggplot2.

Value

A density and diversity map in a world map

Author(s)

[e-mail]

References

Wickham, H. (2011). ggplot2. Wiley Interdisciplinary Reviews: Computational Statistics, 3(2), 180-185.

Qin, X. (2019). HierDpart: partitioning hierarchical diversity and differentiation across metrics and scales, from genes to ecosystems. R package version 0.5. 0 https://cran.r-project.org/package=HierDpart.

Examples

#load data
data(Dprofile)
##plot
dDivgeomap(Dprofile,x=Dprofile$Longitude, y=Dprofile$Latitude,label=Dprofile$Population,
  border_colour=NA, border_fill="antiquewhite",density_fill =Dprofile$Dq1,
  density_alpha = I(.2),density_size = 1, bins = 5, geom = "polygon",
  point_color="red", pointalpha = .2, pointsize=normalize(Dprofile$Dq1)*10)

xinghuq/HierDmap documentation built on July 2, 2023, 10:46 a.m.