clusterDataDend: Create a hclust object from the distance matrix
In PhyloProfile: PhyloProfile

Description Usage Arguments Value Author(s) See Also Examples

Create a hclust object from the distance matrix

1	clusterDataDend(distanceMatrix = NULL, clusterMethod = "complete")

`distanceMatrix`	calculated distance matrix (see ?getDistanceMatrix)
`clusterMethod`	clustering method ("single", "complete", "average" for UPGMA, "mcquitty" for WPGMA, "median" for WPGMC, or "centroid" for UPGMC). Default = "complete".

An object class hclust generated based on input distance matrix and a selected clustering method.

Vinh Tran tran@bio.uni-frankfurt.de

getDataClustering, getDistanceMatrix, hclust

data("finalProcessedProfile", package="PhyloProfile")
data <- finalProcessedProfile
profileType <- "binary"
profiles <- getDataClustering(
    data, profileType, var1AggregateBy, var2AggregateBy)
distMethod <- "mutualInformation"
distanceMatrix <- getDistanceMatrix(profiles, distMethod)
clusterMethod <- "complete"
clusterDataDend(distanceMatrix, clusterMethod)