Spatial Environmental Risk Assessment Through Food Webs

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Documentation for package ‘spacemodR’ version 0.3.5

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

spacemodR-package	The 'spacemodR' package.
add_flux	Add a Flux Rule
add_habitat	Add habitat zones to a Habitat object
add_link	Add links to a trophic table
add_nohabitat	Add non-habitat zones to a Habitat object
apply_flux	Apply trophic flux from a resource layer
bappet_cd	Data concentration Cd Soil - Vegetation extracted from BAPPET
calibrate_direct	Calibrate direct transfer model
calibrate_simple	Calibrate simple transfer model
calibrate_trophic	Calibrate trophic transfer model
compute_dispersal	Compute dispersal or spread map (Generic Engine)
compute_kernel	Create a 2D Gaussian motion kernel as a SpatRaster
cv_soil	Cross-validate a soil interpolation method
DBFunc_BirdFuncDat	Bird Functional Traits Dataset (EltonTraits 1.0)
DBFunc_MamFuncDat	Mammal Functional Traits Dataset (EltonTraits 1.0)
dispersal	Disperse a species or variable over the landscape
earthworm_cd	Data concentration Cd Soil - Earthworm
eunis_species_dict	Species habitat dictionary for EUNIS Level 2 land cover classes
fit_soil_variogram	Fit a variogram model to an empirical soil variogram
flux	Constructor for Flux Parameters
FmrBT	Field Metabolic Rates Database (FmrBT)
get_departements_for_roi	Identify codes of departments intersecting a region of interest
get_eunis_data	Efficiently retrieve EUNIS land cover data from the EEA Ecosystem Type Map
get_gbif_data	Retrieve species occurrences from GBIF
get_ocsge	Retrieve OCS GE data for a region of interest
get_ocsge_data_fgb	Efficiently retrieve OCS GE data from a remote FlatGeobuf
get_ocsge_data_ign	Retrieve OCS GE data from the IGN Géoplateforme
habitat	Create a Habitat object
habitat_raster	Rasterize a Habitat Object
is_cyclic	Test if a directed graph is cyclic
join_ocsge_species	Join OCSGE Spatial Data with Species Traits
kernel_smooth_soil	Gaussian kernel smoothing of soil concentrations
krige_soil	Krige soil concentrations into a raster
load_raster_extdata	load raster file from internal data
lower_neighbors	Get resource layers for a given trophic layer
normalize_weights	Normalize weights of a trophic table
ocsge_metaleurop	SF object defining very simplified OCS-GE soil cover metaleurop
ocsge_species_dict	Species habitat dictionary for OCS-GE land cover and land use
ocsge_us_metaleurop	OCS-GE land cover and land use of the Metaleurop site
plot.habitat	Plot a Habitat object
plot.soil_vgm	Plot an empirical variogram and its fitted model(s)
plot.trophic_tbl	Plot a trophic table
plot_species_habitat	Plot Habitat Suitability Maps from OCSGE Data
raster_stack	Create a RasterStack from a list of rasters and names
ref_eunis	Nomenclature and render colors of EUNIS land cover classes
ref_ocsge	Nomenclature of OCS-GE soil cover
ref_ocsge_eunis	Crosswalk between OCS-GE (cover and use) and EUNIS Level 2
roi_metaleurop	SF object defining ROI metaleurop
sf_micromammals	DataBase of collected MicroMammals species
soil_grid	Build a regular raster grid around sampling points
soil_metaleurop	Soil metal concentrations sampled around the former Metaleurop smelter
soil_variogram	Empirical semi-variogram of soil concentrations
soil_vgm	Build a variogram model by hand
source_covariates	Distance and wind covariates around a contamination source
spacemodel	Create a spacemodel object
spacemodR	The 'spacemodR' package.
SSD_ecoSSL_all	Eco-SSL Toxicity Data for Multiple Taxonomic Groups
summary.soil_cv	Summarise a cross-validation
transfer	Transfer (food, contaminant) across trophic levels
trophic	Create a trophic table
[.trophic_tbl	Subset method for trophic_tbl