crestr (version 1.2.1)

explore_calibration_dataset: 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"
)

Value

The distribution data

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'.

Examples

if (FALSE) {
  #> 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)
}