getDistanceMatrix: Calculate the distance matrix

In BIONF/PhyloProfile: PhyloProfile

Calculate the distance matrix

Description

Calculate the distance matrix

Usage

getDistanceMatrix(profiles = NULL, method = "mutualInformation")

Arguments

profiles	dataframe contains profile data for distance calculating (see ?getDataClustering)
method	distance calculation method ("euclidean", "maximum", "manhattan", "canberra", "binary", "distanceCorrelation", "mutualInformation" or "pearson" for binary data; "distanceCorrelation" or "mutualInformation" for non-binary data). Default = "mutualInformation".

Value

A calculated distance matrix for input phylogenetic profiles.

Author(s)

Carla Mölbert ([e-mail]), Vinh Tran ([e-mail])

See Also

getDataClustering

Examples

data("finalProcessedProfile", package="PhyloProfile")
data <- finalProcessedProfile
profileType <- "binary"
profiles <- getDataClustering(
    data, profileType, var1AggregateBy, var2AggregateBy)
method <- "mutualInformation"
getDistanceMatrix(profiles, method)

BIONF/PhyloProfile documentation built on Dec. 18, 2024, 7:33 a.m.