| oecosimu |
Nestedness and Null Models for Islands or Patches |
| orderingKM |
K-means partitioning using a range of values of K |
| ordiarrows |
Add Graphical Items to Ordination Diagrams |
| ordicloud |
Trellis (Lattice) Plots for Ordination |
| ordicluster |
Add Graphical Items to Ordination Diagrams |
| ordiellipse |
Add Graphical Items to Ordination Diagrams |
| ordigrid |
Add Graphical Items to Ordination Diagrams |
| ordihull |
Add Graphical Items to Ordination Diagrams |
| ordilattice.getEnvfit |
Trellis (Lattice) Plots for Ordination |
| ordiplot |
Alternative plot and identify Functions for Ordination |
| ordiplot3d |
Three-Dimensional and Dynamic Ordination Graphics |
| ordiresids |
Plots of Residuals and Fitted Values for Constrained Ordination |
| ordirgl |
Three-Dimensional and Dynamic Ordination Graphics |
| ordisegments |
Add Graphical Items to Ordination Diagrams |
| ordispider |
Add Graphical Items to Ordination Diagrams |
| ordisplom |
Trellis (Lattice) Plots for Ordination |
| ordisurf |
Fit and Plot Smooth Surfaces of Variables on Ordination. |
| orditkplot |
Ordination Plot with Movable Labels |
| orditorp |
Add Text or Points to Ordination Plots |
| ordixyplot |
Trellis (Lattice) Plots for Ordination |
| orglpoints |
Three-Dimensional and Dynamic Ordination Graphics |
| orglsegments |
Three-Dimensional and Dynamic Ordination Graphics |
| orglspider |
Three-Dimensional and Dynamic Ordination Graphics |
| orgltext |
Three-Dimensional and Dynamic Ordination Graphics |
| panel.ordi |
Trellis (Lattice) Plots for Ordination |
| panel.ordi3d |
Trellis (Lattice) Plots for Ordination |
| permCheck |
Utility functions for permutation schemes |
| permControl |
Unrestricted and restricted permutations |
| permDisper |
Multivariate homogeneity of groups dispersions (variances) |
| permuplot |
Utility functions for permutation schemes |
| permuted.index2 |
Unrestricted and restricted permutations |
| permutest.cca |
Permutation Test for Constrained Correspondence Analysis, Redundancy Analysis and Constrained Analysis of Principal Coordinates |
| persp.renyiaccum |
Renyi and Hill Diversities and Corresponding Accumulation Curves |
| plot.anosim |
Analysis of Similarities |
| plot.betadisper |
Multivariate homogeneity of groups dispersions (variances) |
| plot.cascadeKM |
K-means partitioning using a range of values of K |
| plot.cca |
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis |
| plot.decorana |
Detrended Correspondence Analysis and Basic Reciprocal Averaging |
| plot.envfit |
Fits an Environmental Vector or Factor onto an Ordination |
| plot.fisherfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| plot.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| plot.isomap |
Isometric Feature Mapping Ordination |
| plot.metaMDS |
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores |
| plot.orditkplot |
Ordination Plot with Movable Labels |
| plot.prc |
Principal Response Curves for Treatments with Repeated Observations |
| plot.prestonfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| plot.procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| plot.profile.fisherfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| plot.rad |
Rank - Abundance or Dominance / Diversity Models |
| plot.radfit |
Rank - Abundance or Dominance / Diversity Models |
| plot.radline |
Rank - Abundance or Dominance / Diversity Models |
| plot.renyi |
Renyi and Hill Diversities and Corresponding Accumulation Curves |
| plot.renyiaccum |
Renyi and Hill Diversities and Corresponding Accumulation Curves |
| plot.spantree |
Minimum Spanning Tree |
| plot.specaccum |
Species Accumulation Curves |
| plot.taxondive |
Indices of Taxonomic Diversity and Distinctness |
| plot.varpart |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| plot.varpart234 |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| points.cca |
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis |
| points.decorana |
Detrended Correspondence Analysis and Basic Reciprocal Averaging |
| points.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| points.metaMDS |
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores |
| points.ordiplot |
Alternative plot and identify Functions for Ordination |
| points.orditkplot |
Ordination Plot with Movable Labels |
| points.procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| points.radline |
Rank - Abundance or Dominance / Diversity Models |
| postMDS |
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores |
| prc |
Principal Response Curves for Treatments with Repeated Observations |
| predict.cca |
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA) |
| predict.decorana |
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA) |
| predict.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| predict.rda |
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA) |
| pregraphKM |
K-means partitioning using a range of values of K |
| prepanel.ordi3d |
Trellis (Lattice) Plots for Ordination |
| prestondistr |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| prestonfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| print.adonis |
Multivariate Analysis of Variance Using Distance Matrices |
| print.allPerms |
Utility functions for permutation schemes |
| print.anosim |
Analysis of Similarities |
| print.betadisper |
Multivariate homogeneity of groups dispersions (variances) |
| print.bioenv |
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities |
| print.cca |
[Partial] [Constrained] Correspondence Analysis and Redundancy Analysis |
| print.CCorA |
Canonical Correlation Analysis |
| print.decorana |
Detrended Correspondence Analysis and Basic Reciprocal Averaging |
| print.envfit |
Fits an Environmental Vector or Factor onto an Ordination |
| print.factorfit |
Fits an Environmental Vector or Factor onto an Ordination |
| print.fisherfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| print.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| print.isomap |
Isometric Feature Mapping Ordination |
| print.mantel |
Mantel and Partial Mantel Tests for Dissimilarity Matrices |
| print.metaMDS |
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores |
| print.mrpp |
Multi Response Permutation Procedure of Within- versus Among-Group Dissimilarities |
| print.nestedchecker |
Nestedness and Null Models for Islands or Patches |
| print.nesteddisc |
Nestedness and Null Models for Islands or Patches |
| print.nestedn0 |
Nestedness and Null Models for Islands or Patches |
| print.oecosimu |
Nestedness and Null Models for Islands or Patches |
| print.permCheck |
Utility functions for permutation schemes |
| print.permControl |
Unrestricted and restricted permutations |
| print.permDisper |
Multivariate homogeneity of groups dispersions (variances) |
| print.permutest.cca |
Permutation Test for Constrained Correspondence Analysis, Redundancy Analysis and Constrained Analysis of Principal Coordinates |
| print.prestonfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| print.procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| print.protest |
Procrustes Rotation of Two Configurations and PROTEST |
| print.radfit |
Rank - Abundance or Dominance / Diversity Models |
| print.radline |
Rank - Abundance or Dominance / Diversity Models |
| print.specaccum |
Species Accumulation Curves |
| print.summary.allPerms |
Utility functions for permutation schemes |
| print.summary.bioenv |
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities |
| print.summary.cca |
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis |
| print.summary.decorana |
Detrended Correspondence Analysis and Basic Reciprocal Averaging |
| print.summary.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| print.summary.isomap |
Isometric Feature Mapping Ordination |
| print.summary.permCheck |
Utility functions for permutation schemes |
| print.summary.prc |
Principal Response Curves for Treatments with Repeated Observations |
| print.summary.procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| print.summary.taxondive |
Indices of Taxonomic Diversity and Distinctness |
| print.taxondive |
Indices of Taxonomic Diversity and Distinctness |
| print.varpart |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| print.varpart234 |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| print.vectorfit |
Fits an Environmental Vector or Factor onto an Ordination |
| procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| profile.fisherfit |
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data |
| profile.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| protest |
Procrustes Rotation of Two Configurations and PROTEST |
| pyrifos |
Response of Aquatic Invertebrates to Insecticide Treatment |
| rad.lognormal |
Rank - Abundance or Dominance / Diversity Models |
| rad.null |
Rank - Abundance or Dominance / Diversity Models |
| rad.preempt |
Rank - Abundance or Dominance / Diversity Models |
| rad.zipf |
Rank - Abundance or Dominance / Diversity Models |
| rad.zipfbrot |
Rank - Abundance or Dominance / Diversity Models |
| radfit |
Rank - Abundance or Dominance / Diversity Models |
| rankindex |
Compares Dissimilarity Indices for Gradient Detection |
| rarefy |
Ecological Diversity Indices and Rarefaction Species Richness |
| rda |
[Partial] [Constrained] Correspondence Analysis and Redundancy Analysis |
| read.cep |
Reads a CEP (Canoco) data file |
| renyi |
Renyi and Hill Diversities and Corresponding Accumulation Curves |
| renyiaccum |
Renyi and Hill Diversities and Corresponding Accumulation Curves |
| residuals.cca |
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA) |
| residuals.procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| residuals.rda |
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA) |
| rgl.renyiaccum |
Renyi and Hill Diversities and Corresponding Accumulation Curves |
| ripley.subs |
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities |
| ripley.subsets |
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities |
| RsquareAdj |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| scores |
Get Species or Site Scores from an Ordination |
| scores.betadisper |
Multivariate homogeneity of groups dispersions (variances) |
| scores.cca |
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis |
| scores.decorana |
Detrended Correspondence Analysis and Basic Reciprocal Averaging |
| scores.default |
Get Species or Site Scores from an Ordination |
| scores.envfit |
Fits an Environmental Vector or Factor onto an Ordination |
| scores.metaMDS |
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores |
| scores.ordiplot |
Alternative plot and identify Functions for Ordination |
| scores.orditkplot |
Ordination Plot with Movable Labels |
| scores.rda |
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis |
| screeplot.cca |
Screeplots for Ordination Results and Broken Stick Distributions |
| screeplot.decorana |
Screeplots for Ordination Results and Broken Stick Distributions |
| screeplot.prcomp |
Screeplots for Ordination Results and Broken Stick Distributions |
| screeplot.princomp |
Screeplots for Ordination Results and Broken Stick Distributions |
| showvarparts |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| simpleRDA2 |
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices |
| sipoo |
Birds in the Archipelago of Sipoo (Sibbo) |
| spantree |
Minimum Spanning Tree |
| specaccum |
Species Accumulation Curves |
| specnumber |
Ecological Diversity Indices and Rarefaction Species Richness |
| specpool |
Extrapolated Species Richness in a Species Pool |
| specpool2vect |
Extrapolated Species Richness in a Species Pool |
| spenvcor |
Diagnostic Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA) |
| stepacross |
Stepacross as Flexible Shortest Paths or Extended Dissimilarities |
| stressplot |
Goodness of Fit and Shepard Plot for Nonmetric Multidimensional Scaling |
| summary.allPerms |
Utility functions for permutation schemes |
| summary.anosim |
Analysis of Similarities |
| summary.bioenv |
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities |
| summary.cca |
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis |
| summary.decorana |
Detrended Correspondence Analysis and Basic Reciprocal Averaging |
| summary.humpfit |
No-interaction Model for Hump-backed Species Richness vs. Biomass |
| summary.isomap |
Isometric Feature Mapping Ordination |
| summary.permCheck |
Utility functions for permutation schemes |
| summary.prc |
Principal Response Curves for Treatments with Repeated Observations |
| summary.procrustes |
Procrustes Rotation of Two Configurations and PROTEST |
| summary.radfit.frame |
Rank - Abundance or Dominance / Diversity Models |
| summary.specaccum |
Species Accumulation Curves |
| summary.taxondive |
Indices of Taxonomic Diversity and Distinctness |
| swan |
Beals Smoothing and Degree of Absence |