sdm_area_cell_count: This function uses the 10th models to threhsold the rasters...

In HMB3/sdmgen: Rapidly estimate species ranges and habit sutiability

Description

This function uses the 10th models to threhsold the rasters of habitat suitability (0-1) For each GCM. For each species, summ the 6 GCMS to create a binary raster with cell values between 0-6. These cell values represent the number of GCMs where that cell had a suitability value above the threshold determined by maxent. We classify a cell has suitable if it met the threshold in > 4 GCMs, and use this combined raster to compare current and future suitability, measuring if the suitability of each cell is changing over time, remaining stable or was never suitable It assumes that the maxent predictions were generated by the 'project_maxent_grids_mess' function

Usage

sdm_area_cell_count(
  unit_shp,
  country_shp,
  world_shp,
  sort_var,
  agg_var,
  unit_vec,
  DIR_list,
  species_list,
  number_gcms,
  maxent_path,
  thresholds,
  time_slice,
  write_rasters
)

Arguments

unit_shp	SpatialPolygonsDataFrame - Spdf of the spatial units used to aggregate the maxent results (e.g. Australia)
country_shp	SpatialPolygonsDataFrame - Spdf of the country for aggregating maxent results (e.g. Australia)
world_shp	SpatialPolygonsDataFrame - Spdf of the world for aggregating maxent results
sort_var	Character string - The field name in the shapefile to use for sorting (e.g. Urban area names)
agg_var	Character string - The field name in the shapefile to use for aggregating SDM results (e.g. Urban area codes)
species_list	Character string - The species to run maxent predictions for
maxent_path	Character string - The file path containin the existing maxent models
time_slice	Character string - The time period to create predictions for (e.g. '2050', or '2070')
@param	unit_vec Character string - The field name in the shapefile to use for aggregating SDM results (e.g. Urban area codes)
scen_list	Character string - The list of global circulation models to create predictions for

HMB3/sdmgen documentation built on April 16, 2021, 7:29 p.m.