Solving biasing produced by tied values in cluster analysis.
A high frequency of ties and zero values produces
hierarchical cluster dendrograms whose topology and bootstrap
supports are affected by the order of rows in the original
matrix. The recluster package evaluates the magnitude of this
bias and computes consensus trees after re-sampling the
original row order also applying this algorithm to a multiscale
bootstrap procedure.

Leonardo Dapporto, Matteo Ramazzotti, Simone Fattorini, Roger
Vila, Gerard Telavera, Roger H.L. Dennis

Leonardo Dapporto, Matteo Ramazzotti, Simone Fattorini, Roger
Vila, Gerard Talavera, Roger H.L. Dennis

ape, vegan, picante, cluster, phangorn, phytools

Ordination methods for the analysis of beta-diversity indices.
Beta-diversity indices provide dissimilarity matrices with particular distribution of data requiring specific treatment. For example the high frequency of ties and zero values in turnover indices produces hierarchical cluster dendrograms whose topology and bootstrap supports are affected by the order of rows in the original matrix. Moreover, biogeographical regionalization can be facilitated by a combination of hierarchical clustering and multi-dimensional scaling. The recluster package provides robust techniques to analyze pattern of similarity in species composition.

Ordination Methods for the Analysis of Beta-Diversity Indices

vegan, picante, phangorn, phytools, cluster, plotrix
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
pattern of biodiversity and to improve occurrence data for cryptic taxa.
Other functions 	related to recluster (e.g. the biodecrypt family) are currently
available in GitHub at <https://github.com/leondap/recluster>.