shrink = TRUE
, bin frequencies are estimated by James-Stein-type shrinkageasSLR
support to objective.keepWADIST
by comparing with Euclidean distanceobjective.maxDSKL
maximizes the RDA of a PCoA of the SKL divergencesobjective.keepSKL
preserves the symmetric Kullback-Leibler (SKL) divergencesobjective.keepWADIST
preserves the weighted Aitchison distancesobjective.keepEntropy
now recloses the amalgamation (as it should)objective.maxDEntropy
now recloses the amalgamation (as it should)shannon
function calculates Shannon's indexuniformity
function calculates a normalized Shannon's indexobjective.keepEntropy
preserves the relative entropy of the amalgamsobjective.maxDEntropy
maximizes the between-group difference in amalgam entropyamalgam
functionprepareArgs
now forces a re-closure of the dataobjective.maxRDA
and objective.maxRDA2
(again)objective.maxRDA
and objective.maxRDA2
objective.maxRDA
and objective.maxRDA2
objective.maxRDA2
methodobjective.maxRDA
but makes "z" the community matrixobjective.maxRDA
methodprepareArgs
coerce "z" as a data.frame
objective.maxRDA
methodobjective.maxRDA
methodtryCatch
to handle the Lapack routine 'dgesdd' erroras.slr
function turns components into a set of summed log-ratiosamalgam
asSLR
argument passed to objective functionsplot
method for SLRsamalgam
zCompositions::cmultRepl
adot
computes Aitchison scalar product for two vectorsamat
computes Aitchison scalar product for two matricesplot.amalgam
zCompositions
to Suggestsint
methodsint.fromNbit
converts a binary vector into integersweight
methodsweight.Nto1
builds a many-to-one amalgamation matrixweight.NtoN
builds a many-to-many amalgamation matrixobjective
methodsobjective.keepDist
seeks to preserve Aitchison distanceobjective.maxRDA
seeks to maximize constraint of RDAamalgam
wrapperprint.amalgam
shows the object structureplot.amalgam
makes 4-panel figureAdd the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.