Package index • nicheR

All functions

add_data(): Add occurrence points or other data to an existing E-space plot
add_data_3d(): Add data to an existing 3D E-space plot
add_ellipsoid(): Add an ellipsoid boundary to an existing E-space plot
add_ellipsoid_3d(): Add an ellipsoid to an existing 3D E-space plot
apply_bias(): Apply sampling bias to suitability surfaces
back_data: Background environmental data for examples
build_ellipsoid(): Build a probabilistic ellipsoidal niche from ranges
conserved_ellipses(): Generate ellipses via multivariate normal biased sampling
covariance_limits(): Calculate safe covariance ranges for positive definiteness
ellipsoid_calculator(): Calculate n-dimensional ellipsoid metrics
ellipsoid_volume(): Compute ellipsoid hypervolume
example_sp_1 example_sp_2 example_sp_3 example_sp_4: Example niche ellipsoid objects for virtual communities
ma_bios: Bioclimatic variables for part of the Americas
nested_ellipses(): Generate nested ellipses based on a reference ellipse
plot_community(): Plot a nicheR Community of Ellipses
plot_ellipsoid(): Plot a nicheR ellipsoid in environmental space
plot_ellipsoid_3d(): Plot a nicheR ellipsoid in 3D environmental space
plot_ellipsoid_pairs(): Plot all pairwise 2D ellipsoid projections
predict(<nicheR_ellipsoid>) predict(<nicheR_community>): Predict suitability and Mahalanobis distance from a nicheR ellipsoid
prepare_bias(): Prepare sampling bias surfaces
print(<nicheR_ellipsoid>) print(<nicheR_community>): Print method for nicheR objects
random_ellipses(): Generate random ellipses constrained by a point cloud and a reference ellipse
ranges_from_data() ranges_from_stats(): Compute variable ranges from data or statistics with optional expansion
read_nicheR(): Read a nicheR object from disk
ref_ellipse: Reference ellipse for virtual community examples
sample_biased_data(): Sample occurrence data from a bias-weighted prediction surface
sample_data(): Sample occurrence data from a prediction surface
save_nicheR(): Save a nicheR object to disk
update_covariance(): Update covariance values and calculate remaining safe limits
update_ellipsoid_covariance(): Update covariances in a nicheR ellipsoid and recompute metrics
virtual_data(): Generate data based on a ellipsoidal niche