doChroma: Compute chroma information

In AnnePetersen1/PCADSC: Tools for Principal Component Analysis-Based Data Structure Comparisons

Compute chroma information

Description

Computes the information that is needed in order to make a chromaPlot from a PCADSC or pcaRes object. Typically, this function is called on a partial PCADSC object in order to add chromaInfo (see examples).

Usage

doChroma(x)

Arguments

x	Either a PCADSC or a pcaRes object.

See Also

chromaPlot, PCADSC

Examples

#load iris data
data(iris)

#Define grouping variable, grouping the observations by whether their species is
#Setosa or not
iris$group <- "setosa"
iris$group[iris$Species != "setosa"] <- "non-setosa"
iris$Species <- NULL

## Not run: 
#make a partial PCADSC object, splitting the data by "group"
irisPCADSC <- PCADSC(iris, "group", doChroma = FALSE)

#No chromaInfo available
irisPCADSC$chromaInfo

#Add and show chromaInfo
irisPCADSC <- doChroma(irisPCADSC)
irisPCADSC$chromaInfo

## End(Not run)

#Make a partial PCADSC object and only add chroma information for a
#faster runtime
irisPCADSC_fast <- PCADSC(iris, "group", doAngle = FALSE,
  doChroma = FALSE, doCE = FALSE)
irisPCADSC_fast <- doChroma(irisPCADSC_fast)
irisPCADSC_fast$chromaInfo

AnnePetersen1/PCADSC documentation built on May 3, 2022, 4:33 a.m.