explore_calibration_dataset: Extract distributions from the database

In mchevalier2/crestr: A Probabilistic Approach to Reconstruct Past Climates Using Palaeoecological Datasets

Extract distributions from the database

Description

This function will extract the distributions of all the studied climate proxy and plot the data on a map.

Usage

explore_calibration_dataset(
  taxaType,
  save = FALSE,
  filename = "calibrationDataset.pdf",
  col = viridis::viridis(22)[3:22],
  width = 7.48,
  height = 7.48,
  as.png = FALSE,
  png.res = 300,
  xmn = NA,
  xmx = NA,
  ymn = NA,
  ymx = NA,
  continents = NA,
  countries = NA,
  realms = NA,
  biomes = NA,
  ecoregions = NA,
  dbname = "gbif4crest_02"
)

Arguments

taxaType	A numerical index (between 1 and 6) to define the type of palaeoproxy used: 1 for plants, 2 for beetles, 3 for chironomids, 4 for foraminifers, 5 for diatoms and 6 for rodents. The example dataset uses taxaType=0 (pseudo-data). Default is 1.
save	A boolean to indicate if the diagram should be saved as a pdf file. Default is FALSE.
filename	An absolute or relative path that indicates where the diagram should be saved. Also used to specify the name of the file. Default: the file is saved in the working directory under the name 'Reconstruction_climate.pdf'.
col	A colour gradient.
width, height	The dimensions of the pdf file (default 7.48in ~19cm).
as.png	A boolean to indicate if the output should be saved as a png. Default is FALSE and the figure is saved as a pdf file.
png.res	The resolution of the png file (default 300 pixels per inch).
xmn, xmx, ymn, ymx	The coordinates defining the study area.
continents	A vector of the continent names defining the study area.
countries	A vector of the country names defining the study area.
realms	A vector of the studied botanical realms defining the study area.
biomes	A vector of the studied botanical biomes defining the study area.
ecoregions	A vector of the studied botanical ecoregions defining the study area.
dbname	The name of the database. Default is 'gbif4crest_02'.

Value

The distribution data

Examples

## Not run: 
  #> Replace 'tempdir()' by the location where to save the sample (e.g. 'getwd()')
  d = explore_calibration_dataset(2, xmn=-85, xmx=-30, ymn=-60, ymx=15,
                                  save=TRUE, width = 4, height = 7.5,
                                  filename=file.path(tempdir(), 'calibrationDataset.pdf')
  )
  head(d)

## End(Not run)

mchevalier2/crestr documentation built on Feb. 14, 2025, 6:31 p.m.