crestr v1.3.0

• The dependencies to rgdal, sp and raster were replaced to a single dependency to terra as these packages are being retired.
• New functions and features:
  • crest.simplify() transforms a crestObj into a simple data frame with only the main reconstructed values.
  • dbSubset() extracts a subset of the calibration dataset and makes data extraction much faster.
  • dbDownload() allows downloading the calibration dataset on your machine.
  • The example dataset is now available offline.
  • loo() can be run on a subset of the available variables to make the process faster.
  • getTaxonomy() can be used with a crestObj() to refine the search to a specific study area.
  • INCLUDING A NEW PARAMETER TO crest.calibrate(): climateSpaceWeighting.type. This parameter is useful to reduce the edge effects to the climate space calibration, as the range of weights could easily cover several ranges of amplitude. This can be toned down using 'sqrt' or 'log', instead of the default 'linear'.
  • crest.get_modern_data() now extract geopolitcal and biogeophical information from the gbif4crest database.
• Plotting:
  • The results can be plotted as anomalies.
  • Enabling to select samples by age in plot.speciesCharacteristics()
  • The correct filename extensions (.pdf or .png) is automatically in all plotting functions.
  • Many visual improvements when exporting the plots to pdf or png.
• Major issues:
  • Fixing a major stability issue regarding the connection test (does not impact any result derived from the package)
  • Reliance on an active internet connection has been significantly reduced.
  • Portability of the RData output file was increased.
• Minor issues:
  • If the input df contained NA, crest.get_modern_data() was crashing. Default value now set to 0.
  • Updating vignettes (reducing the amount of code actually ran to create the vignette).
  • Database handlers can better handle the reduced list of parameters available in the calibration databse
  • The north and east labels in export() were inverted.
  • The ylim parameter in plot(simplify=TRUE) did not allow to select a y-range larger than the range of the uncertaintieS.
  • Including more quality tests for the functions parameters (e.g. climate, taxa, taxanames, samples, uncertainties, bin_width).

v1.2.1

• Getting rid of one warning in export()
• Replacing epsg:4326 by +proj=longlat +datum=WGS84 +no_defs to potentially avoid bugs when plotting maps (problem ultimately related to latest version of gdal and proj)
• Problem of non-recorded taxa in selectedtaxa caused the final plots to crash. they are now excluded and set a value of -2.
• Adding a CRAN-compatible way of dealing with failed online connections (includes checking if is.crestObj(x) in every function).
• Minor corrections
  • Removing unnecessary prints
  • Improved documentation

v1.2.0

Adding automatic R CMD CHECK

v1.1.0

This new version of the package enables users to use the gbif4crest SQLite3 database and work offline.

v1.0.2

Version submitted to CRAN.

v1.0.1

Minor bugs were fixed in this release. This version is associated with the final version used in the Climate of the Past reference.

First stable version!

This is the first stable version of crestr. This version is also available on CRAN.