Ordination Methods for the Analysis of Beta-Diversity Indices
Perform a cross validation analysis to test the attribution of biodecr...
Comparing the values obtained by biodecrypt.wrap, it optimises the com...
Plotting pies with RGB colours on a custom coordinate space
Plotting biodecrypt and biodecrypt.cross results.
An algorithm to attribute unidentified occurrence data based on a subs...
A function to view the hulls and manually adjust alpha values before a...
Wraps the biodecrypt.cross analysis to compare the performance of biod...
Bootstrap nodes of consensus trees
An internal workaround for the new ape package
Projecting a two dimensional plot in RGB space
Consensus tree from row-order permutations of a dissimilarity matrix
Compute a dissimilarity matrix using a battery of beta-diversity indic...
Cuts a phylogenetic tree and provides cluster membership of areas for ...
Computes the dissimilarity contained in a distance matrix which is exp...
A plotter for recluster bootstrapped objects
Compute pairwise indexes of genetic differentiation among populations
Compute some indexes of genetic differentiation
Computes mean coordinate values and RGB colours.
Histogram of dissimilarity with tied and zero values
Evaluating solutions in multiscale bootstrap
Identifies a line in a configuration and computes its intercept and an...
Multiscale bootstrap based on a consensus tree
Evaluating order row bias in a cluster
Plotting data in RGB space
Plot the values of the cells of a matrix in grey scale
Plotting RGB dots on a custom coordinate space
Computes a procrustes analysis between two matrices even if only a sub...
Ordination methods for biodiversity patterns.
Consensus-based regionalisation from repeated row-order resampling
Rotates a bidimensional configuration according to a line
Test variation lost by a bidimensional configuration when the coordina...
The analysis of different aspects of biodiversity requires specific algorithms. For example, in regionalisation analyses, the high frequency of ties and zero values in dissimilarity matrices produced by Beta-diversity turnover produces hierarchical cluster dendrograms whose topology and bootstrap supports are affected by the order of rows in the original matrix. Moreover, visualisation of biogeographical regionalisation can be facilitated by a combination of hierarchical clustering and multi-dimensional scaling. The recluster package provides robust techniques to visualise and analyse patterns of biodiversity and to improve occurrence data for cryptic taxa.