occurrences_plot: Quick geographic plot of occurrence data

In biodiversitydata-se/SBDI4R: Swedish Biodiversity Data Infrastructure Data and Resources in R

Quick geographic plot of occurrence data

Description

Generates a plot of occurrence data retrieved using occurrences. The plot uses a Swedish basemap and colours the occurrence records dots according to parameters

Usage

occurrences_plot(
  x,
  filename = "Rplots.pdf",
  qa = c("fatal", "error"),
  sweLyr = "Border",
  grouped = FALSE,
  taxon_level = "species",
  pch,
  cex = 0.75,
  ...
)

Arguments

x	list: a list object that has been downloaded using occurrences
filename	string: name of file to be created; defaults to RPlots.pdf
qa	string vector: list of record issues to be mapped; these can be assertion column names, or 'all' or 'none' or any combination of 'error', 'warning' or 'fatal'. Column or categories in your data set can be viewed using check_assertions.
sweLyr	string: layer of swe_WGS84 to be plotted as background. Options are =c("Border" [default], "Counties","LA_regions","FA_regions","Municipalities")
grouped	logical: TRUE creates a single plot for all observations; FALSE plots individual maps for the taxon level defined.
taxon_level	string: taxonomic level at which to create maps; possible values are 'species', 'genus', 'family' or 'order'
pch	single number or character representing point type. See description of pch in points.
cex	numeric: character (or symbol) expansion. See description of cex in points.
...	: other options passed to pdf()

Value

Generates a pdf that maps the distributions of the observations.

References

https://api.biodiversitydata.se/

Examples

## Not run:  
#download some observations
x <- occurrences(taxon="Lutra lutra", download_reason_id=10) ## remember to configure your email
occurrences_plot(x)
x <- occurrences(taxon="Mayfly", download_reason_id=10)
occurrences_plot(x,"obsPlot.pdf", qa="fatal", 
                 grouped=FALSE, taxon_level="species", pch='+')

## End(Not run)

biodiversitydata-se/SBDI4R documentation built on Feb. 23, 2024, 4:15 p.m.