Frequently Asked Questions

Aurélie Siberchicot, Stéphane Dray, Jean Thioulouse

2025-04-07

set.seed(2564)
library(ade4)
library(adegraphics)
## Registered S3 methods overwritten by 'adegraphics':
##   method         from
##   biplot.dudi    ade4
##   kplot.foucart  ade4
##   kplot.mcoa     ade4
##   kplot.mfa      ade4
##   kplot.pta      ade4
##   kplot.sepan    ade4
##   kplot.statis   ade4
##   scatter.coa    ade4
##   scatter.dudi   ade4
##   scatter.nipals ade4
##   scatter.pco    ade4
##   score.acm      ade4
##   score.mix      ade4
##   score.pca      ade4
##   screeplot.dudi ade4
## 
## Attachement du package : 'adegraphics'
## Les objets suivants sont masqués depuis 'package:ade4':
## 
##     kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
##     s.label, s.logo, s.match, s.traject, s.value, table.value,
##     triangle.class

1 How to personalize plots

1.1 How to update title axes?

df <- data.frame(x = rep(1:10,1), 
                 y = rep(1:10, each = 10), 
                 ms_li = runif(100, min = -5, max = 4))
s.value(df[, 1:2], df$ms_li, 
        paxes.draw = TRUE)

1.1.1 Size titles on axes

xlab.cex and ylab.cex manage the size titles on the x and y axes.

s.value(df[, 1:2], df$ms_li, 
        paxes.draw = TRUE,
        xlab = "Longitude", xlab.cex = 0.5,
        ylab = "Latitude", ylab.cex = 0.5
        )

1.1.2 Size labels on axes

scales.x.cex and scales.y.cex manage the sizes labels on the x and y axes.

s.value(df[, 1:2], df$ms_li, 
        paxes.draw = TRUE,
        scales.x.cex = 0.5,
        scales.y.cex = 0.5
        )

1.1.3 Margin of axis

layout.heights = list(bottom.padding = 1) manages the margin of the bottom axis. This enlarges the space for a larger title axis.

s.value(df[, 1:2], df$ms_li, 
        paxes.draw = TRUE,
        xlab = "Longitude", xlab.cex = 2,
        ylab = "Latitude", ylab.cex = 2,
        layout.heights = list(bottom.padding = 2)
        )

1.2 How to update label’s boxes ?

x0 <- runif(50, -2, 2)
y0 <- runif(50, -2, 2)
s.label(data.frame(x0, y0))

1.2.1 Remove boxes around labels

s.label(data.frame(x0, y0), plabels.boxes.border = 0)

s.label(data.frame(x0, y0), plabels.boxes.draw = FALSE, ppoints.cex = 0)

1.2.2 Color of label’s boxes

s.label(data.frame(x0, y0), plabels.boxes.col = "orange")

1.2.3 Border of label’s boxes

s.label(data.frame(x0, y0), plabels.boxes.border = "blue", plabels.boxes.lwd = 2)