PlotScoresXY: Plotting the scores from the PCALMEffects function

In FranceschiniS/LMWiRe: R Routines for Linear Model with Wide Response

Description

Draw one or more graphs of the scores from a PCA. More specifically the result of the PCALMEffects function.

Usage

PlotScoresXY(ResPCALMEffects, design, EffectVector, PCaxes = c(1, 2),
  varname.color, varname.pch, ...)

Arguments

ResPCALMEffects	A list of p elements depending of the model terms from PCALMEffects
design	A n x d "free encoded" experimental design matrix with n observations and d the categorical variables.
EffectVector	A character vector of length l with the name of the model terms to plot
PCaxes	A vector with the two PC to plot for every effects
varname.color	A character variable with the name of the model term to use as color
varname.pch	A character variable with the name of the model term to use as pch
...	Other arguments from DrawScores

Details

Some messages from ggplot2 could be suppressed while we overwrite the graphs.

Value

A list of l ggplot2 graphs

Examples

 data('UCH')
 ResLMModelMatrix = LMModelMatrix(formula=as.formula(UCH$formula),design=UCH$design)
 ResLMEffectMatrices = LMEffectMatrices(ResLMModelMatrix,outcomes=UCH$outcomes)
 ResPCALMEffects = PCALMEffects(ResLMEffectMatrices,method="ASCA-E")
 PlotScoresXY(ResPCALMEffects = ResPCALMEffects, design = UCH$design,
  EffectVector = c("Time","Hippurate"),varname.color = "Citrate", varname.pch = "Hippurate")

FranceschiniS/LMWiRe documentation built on Oct. 30, 2019, 6:20 p.m.