Spatial Ecology Miscellaneous Methods

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Documentation for package ‘ecospat’ version 3.4

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ecospat-package Spatial Ecology Miscellaneous Methods
ecospat Spatial Ecology Miscellaneous Methods
ecospat.adj.D2.glm Calculate An Adjusted D2
ecospat.binary.model Generate Binary Models
ecospat.boyce Calculate Boyce Index
ecospat.calculate.pd Calculate Phylogenetic Diversity Measures
ecospat.caleval Calibration And Evaluation Dataset
ecospat.CCV.communityEvaluation.bin Calculates a range of community evaluation metrics based on different thresholding techniques.
ecospat.CCV.communityEvaluation.prob Evaluates community predictions directly on the probabilities (i.e., threshold independent)
ecospat.CCV.createDataSplitTable Creates a DataSplitTable for usage in ecospat.ccv.modeling.
ecospat.CCV.modeling Runs indivudual species distribuion models with SDMs or ESMs
ecospat.climan A climate analogy setection tool for the modeling of species distributions
ecospat.cohen.kappa Cohen's Kappa
ecospat.CommunityEval Community Evaluation
ecospat.cons_Cscore Constrained Co-Occurrence Analysis.
ecospat.cor.plot Correlation Plot
ecospat.co_occurrences Species Co-Occurrences
ecospat.Cscore Pairwise co-occurrence Analysis with calculation of the C-score index. GBM Cross Validation GLM Cross Validation Maxent Cross Validation RandomForest Cross Validation
ecospat.Epred Prediction Mean
ecospat.ESM.EnsembleEvaluation Ensemble of Small Models: Evaluation via the Pooling procedure
ecospat.ESM.EnsembleModeling Ensemble of Small Models: Evaluates and Averages Simple Bivariate Models To ESMs
ecospat.ESM.EnsembleProjection Ensemble of Small Models: Projects Calibrated ESMs Into New Space Or Time.
ecospat.ESM.Modeling Ensemble of Small Models: Calibration of Simple Bivariate Models
ecospat.ESM.Projection Ensemble of Small Models: Projects Simple Bivariate Models Into New Space Or Time
ecospat.ESM.responsePlot Produce response plots for ESMs
ecospat.ESM.threshold Thresholds for Ensemble of Small Models
ecospat.ESM.VarContrib Variable contribution in ESM
ecospat.grid.clim.dyn Dynamic Occurrence Densities Grid
ecospat.makeDataFrame Make Data Frame
ecospat.mantel.correlogram Mantel Correlogram
ecospat.margin Delineation of the distribution's margin and its uncertainty
ecospat.max.kappa Maximum Kappa
ecospat.max.tss Maximum TSS
ecospat.maxentvarimport Maxent Variable Importance
ecospat.mdr Minimum Dispersal Routes)
ecospat.mess MESS
ecospat.meva.table Model Evaluation For A Given Threshold Value
ecospat.mpa Minimal Predicted Area
ecospat.niche.dyn.index Niche Expansion, Stability, and Unfilling
ecospat.niche.dynIndexProjGeo Projection of niche dynamic indices to the Geography
ecospat.niche.equivalency.test Niche Equivalency Test
ecospat.niche.overlap Calculate Niche Overlap
ecospat.niche.similarity.test Niche Similarity Test
ecospat.niche.zProjGeo Projection of Occurrence Densities to the Geography
ecospat.nicheNBmean Niche position and niche breadth)
ecospat.nichePOSNB Niche position and niche breadth)
ecospat.npred Number Of Predictors
ecospat.occ.desaggregation Species Occurrences Desaggregation
ecospat.occupied.patch Extract occupied patches of a species in geographic space.)
ecospat.permut.glm GLM Permutation Function
ecospat.plot.contrib Plot Variables Contribution
ecospat.plot.kappa Plot Kappa
ecospat.plot.mess Plot MESS
ecospat.plot.niche Plot Niche
ecospat.plot.niche.dyn Niche Categories and Species Density
ecospat.plot.overlap.test Plot Overlap Test
ecospat.plot.tss Plot True skill statistic (TSS)
ecospat.poolingEvaluation Evaluation of species distribution models using the pooling procedure
ecospat.rand.pseudoabsences Sample Pseudo-Absences
ecospat.rangesize Quantification of the range size of a species using habitat suitability maps and IUCN criteria)
ecospat.rcls.grd Reclassifying grids function
ecospat.recstrat_prop Random Ecologically Stratified Sampling of propotional numbers
ecospat.recstrat_regl Random Ecologically Stratified Sampling of equal numbers
ecospat.sample.envar Sample Environmental Variables
ecospat.SESAM.prr SESAM Probability Ranking Rule
ecospat.shift.centroids Draw Centroid Arrows
ecospat.testData Test Data For The Ecospat package
ecospat.testEnvRaster Test Environmental Rasters for The Ecospat package
ecospat.testMdr Test Data For The ecospat.mdr function
ecospat.testNiche Test Data For The Niche Overlap Analysis
ecospat.testNiche.inv Test Data For The Niche Dynamics Analysis In The Invaded Range Of A Hypothetical Species
ecospat.testNiche.nat Test Data For The Niche Dynamics Analysis In The Native Range Of A Hypothetical Species
ecospat.testNichePOSNB Test AVS Dataset For The Ecospat package
ecospat.testTree Test Tree For The Ecospat package
ecospat.varpart Variation Partitioning For GLM Or GAM