GUI for biodiversity and community ecology analysis


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Documentation for package ‘BiodiversityR’ version 1.2

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BiodiversityR-package GUI for biodiversity and community ecology analysis
accumcomp Alternative Species Accumulation Curve Results
accumplot Alternative Species Accumulation Curve Results
accumresult Alternative Species Accumulation Curve Results
add.spec.scores Add Species Scores to Unconstrained Ordination Results
balanced.specaccum Balanced Species Accumulation Curves
BCI.env Barro Colorado Island Quadrat Descriptions
BiodiversityR GUI for biodiversity and community ecology analysis
BiodiversityRGUI GUI for Biodiversity Analysis and Ordination
CAPdiscrim Canonical Analysis of Principal Coordinates based on Discriminant Analysis
caprescale Rescaling of Capscale Results to Reflect Total Sums of Squares Of Distance Matrix
check.datasets Synchronize Community and Environmental Datasets
check.ordiscores Synchronize Community and Environmental Datasets
crosstabanalysis Presence-absence Analysis by Cross Tabulation
deviancepercentage Calculate Percentage and Significance of Deviance Explained by a GLM
dist.eval Distance Matrix Evaluation
dist.zeroes Distance Matrix Transformation
distdisplayed Compare Distance Displayed in Ordination Diagram with Distances of Distance Matrix
disttransform Community Matrix Transformation
diversitycomp Alternative Diversity Results
diversityresult Alternative Diversity Results
faramea Faramea occidentalis abundance in Panama
import.from.Access Import Community or Environmental Data from Excel or Access
import.from.Excel Import Community or Environmental Data from Excel or Access
loaded.citations Give Citation Information for all Loaded Packages
makecommunitydataset Make a Community Dataset from a Stacked Dataset
multiconstrained Pairwise Comparisons for All Levels of a Categorical Variable by RDA, CCA or Capscale
nested.anova.dbrda Nested Analysis of Variance via Distance-based Redundancy Analysis or Non-parametric Multivariate Analysis of Variance
nested.npmanova Nested Analysis of Variance via Distance-based Redundancy Analysis or Non-parametric Multivariate Analysis of Variance
NMSrandom Calculate the NMS Result with the Smallest Stress from Various Random Starts
nnetrandom Calculate the NNET Result with the Smallest Value from Various Random Starts
ordibubble Add Other Graphical Items to Ordination Diagrams
ordicluster2 Add Other Graphical Items to Ordination Diagrams
ordicoeno Coenoclines for an Ordination Axis
ordiequilibriumcircle PCA Significance
ordihull.centroids Add Other Graphical Items to Ordination Diagrams
ordinearest Add Other Graphical Items to Ordination Diagrams
ordispider.centroids Add Other Graphical Items to Ordination Diagrams
ordisymbol Add Other Graphical Items to Ordination Diagrams
ordivector Add Other Graphical Items to Ordination Diagrams
PCAsignificance PCA Significance
radfitresult Alternative Rank Abundance Fitting Results
rankabuncomp Rank Abundance Curves
rankabundance Rank Abundance Curves
rankabunplot Rank Abundance Curves
removeNAcomm Synchronize Community and Environmental Datasets
removeNAenv Synchronize Community and Environmental Datasets
removezerospecies Synchronize Community and Environmental Datasets
renyiaccumresult Alternative Renyi Diversity Results
renyicomp Alternative Renyi Diversity Results
renyiplot Alternative Renyi Diversity Results
renyiresult Alternative Renyi Diversity Results
residualssurface Show and Interpolate Two Dimensional Distribution of Residuals
same.sites Synchronize Community and Environmental Datasets
spatialsample Spatial Sampling within a Polygon
subsetcomm Synchronize Community and Environmental Datasets
transfgradient Gradient for Hypothetical Example of Turover of Species Composition
transfspecies Hypothetical Example of Turover of Species Composition
warcom Warburgia ugandensis AFLP Scores
warenv Warburgia ugandensis Population Structure