Uses species occupancy at coarse grain sizes to predict species occupancy at fine grain sizes. Ten models are provided to fit and extrapolate the occupancy-area relationship, as well as methods for preparing atlas data for modelling. See Marsh et. al. (2018)
NEWS for downscale package
31/08/2018 Extra information and reference added to description
30/08/2018 CITATION file added for JSS article and that and MEE article added to references
24/08/2017 CITATION file added for JSS in press article
08/08/2017 SpatialPointsDataFrame input added to upgrain helpfile downscale helpfile updated
01/08/2017 Bug when using SpatialPointsDataFrame corrected
28/07/2017 'lat' and 'lon' replaced with 'x' and 'y' in data frame input SpatialPointsDataFrame allowed as input
24/11/2016 Bug fixed with error checking in predict.downscale and ensemble.downscale
29/09/2016 No need to input cell width in hui.downscale with raster or upgrain object
18/08/2016 Default upgraining method changed to "All_Sampled" Names of parameters harmonised with JSS paper
10/03/2016 Tutorials checked and adjusted
09/03/2016 'spocc' replaced by 'rgbif' in tutorial
25/02/2016 Bug for calculating extent in upgrain function fixed upgrain now can return all upgrained rasters ExtendRaster function deleted (now obsolete)
09/10/2015 upgrain and upgrain.threshold: 'All Presences' changed to 'All_Occurrences' upgrain and upgrain.threshold: bugs fixed when selecting number of scales upgrain: plotting now optional DataInput: bug in scale of endemism corrected Vignettes updated
18/05/2015 plot and predict changed to s3 methods help files and examples updated Tutorial vignette added
08/05/2015 Raster package now depends Argument names harmonised across functions Option to specify starting parameters More plotting arguments Calculates AOO as well as occupancy Upgraining vignette added
24/04/2015 Function upgrain.threshold added to explore trade-offs in threshold selection upgrain now allows thresholds of the four default thresholds
14/04/2015 Plotting added to upgrain function Hui model added
13/03/2015 Starting parameters modified Corrected plotting when 0's predicted
24/02/2015 ensemble.predict: means calculated as mean of log occupancies ensemble.predict: warning messages for inconsistent results
23/02/2015 package.rd file updated ensemble - different tolerances allowed for modelling and predicting
05/02/2015 plot=TRUE added to ensemble plotting optimisation of logistic model now includes lower bounds optimisation of GNB model now includes upper and lower bounds
04/02/2015 ensemble.downscale function added
03/02/2015 plotting function added and plotting option added to 'predict.downscale' output of function downscale defined as class 'downscale' output of function predict.downscale defined as class 'predict.downscale' outputs updated to include observed data for use in the plot function help files for downscale and predict.downscale updated