Spatial Ecology Miscellaneous Methods
Spatial Ecology Miscellaneous Methods
Calculate An Adjusted D2
Generate Binary Models
Calculate Boyce Index
Species Co-Occurrences
Cohen's Kappa
Model Evaluation For A Given Threshold Value
Minimal Predicted Area
Niche Pioneering, Expansion, Stability, Unfilling and Abandonment
Projection of niche dynamic indices to the Geography
Niche Equivalency Test
Species Occurrences Desaggregation
Plot of categories of Niche dynamics and Species Density
Plot Niche
Plot Overlap Test
Plot True skill statistic (TSS)
Evaluation of species distribution models using the pooling procedure
Sample Pseudo-Absences
Quantification of the range size of a species using habitat suitabilit...
Reclassifying grids function
Draw Centroid Arrows
Test Environmental SpatRasters for The Ecospat package
Calculate Phylogenetic Diversity Measures
Calibration And Evaluation Dataset
Calculates a range of community evaluation metrics based on different ...
Evaluates community predictions directly on the probabilities (i.e., t...
Creates a DataSplitTable for usage in ecospat.ccv.modeling.
Runs indivudual species distribuion models with SDMs or ESMs
A climate analogy setection tool for the modeling of species distribut...
Community Evaluation
Constrained Co-Occurrence Analysis.
Correlation Plot
Pairwise co-occurrence Analysis with calculation of the C-score index.
GBM Cross Validation
GLM Cross Validation
Maxent Cross Validation
RandomForest Cross Validation
Prediction Mean
Ensemble of Small Models: Evaluation via the Pooling procedure
Ensemble of Small Models: Evaluates and Averages Simple Bivariate Mode...
Ensemble of Small Models: Projects Calibrated ESMs Into New Space Or T...
Ensemble of Small Models: Calibration of Simple Bivariate Models
Ensemble of Small Models: Projects Simple Bivariate Models Into New Sp...
Produce response plots for ESMs
Thresholds for Ensemble of Small Models
Variable contribution in ESM
Dynamic Occurrence Densities Grid
Mantel Correlogram
Delineation of the distribution's margin and its uncertainty
Maximum Kappa
Maximum TSS
Maxent Variable Importance
Minimum Dispersal Routes)
MESS
Calculate Niche Overlap
Niche Similarity Test
Projection of Occurrence Densities to the Geography
Niche position and niche breadth)
Niche position and niche breadth)
Number Of Predictors
Extract occupied patches of a species in geographic space.)
GLM Permutation Function
Plot Variables Contribution
Plot Kappa
Plot MESS
Random Ecologically Stratified Sampling of propotional numbers
Random Ecologically Stratified Sampling of equal numbers
Sample Environmental Variables
SESAM Probability Ranking Rule
Test Tree For The Ecospat package
Variation Partitioning For GLM Or GAM
Collection of R functions and data sets for the support of spatial ecology analyses with a focus on pre, core and post modelling analyses of species distribution, niche quantification and community assembly. Written by current and former members and collaborators of the ecospat group of Antoine Guisan, Department of Ecology and Evolution (DEE) and Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Switzerland. Read Di Cola et al. (2016) <doi:10.1111/ecog.02671> for details.
Useful links