prot.plot_screeplot() creates a SCREE plot of the explained variation in the principal components of a 'princomp' object
Usage
prot.plot_screeplot(
pcaobj,
components,
xlim = NULL,
ylim = c(0, 100),
xlab = "Principal component",
xlabAngle = 90,
xlabhjust = 0.5,
xlabvjust = 0.5,
ylab = "Explained variation (%)",
ylabAngle = 0,
ylabhjust = 0.5,
ylabvjust = 0.5,
axisLabSize = 16,
title = "SCREE plot",
subtitle = "",
caption = "",
titleLabSize = 16,
subtitleLabSize = 12,
captionLabSize = 12,
colBar = "dodgerblue",
drawCumulativeSumLine = TRUE,
colCumulativeSumLine = "red2",
sizeCumulativeSumLine = 1.5,
drawCumulativeSumPoints = TRUE,
colCumulativeSumPoints = "red2",
sizeCumulativeSumPoints = 2,
hline = NULL,
hlineType = "longdash",
hlineCol = "black",
hlineWidth = 0.4,
vline = NULL,
vlineType = "longdash",
vlineCol = "black",
vlineWidth = 0.4,
gridlines.major = TRUE,
gridlines.minor = TRUE,
borderWidth = 0.8,
borderColour = "black",
plot = TRUE,
export = TRUE
)Arguments
- pcaobj
An object of class 'princomp'
- components
A numeric vector of principal component numbers to include in the plot
- xlim
A numeric vector of length 2 specifying the x-axis limits
- ylim
A numeric vector of length 2 specifying the y-axis limits. Default is c(0, 100)
- xlab
A character string for x-axis label
- xlabAngle
Numeric value for x-axis label angle
- xlabhjust
Numeric value for x-axis label horizontal justification
- xlabvjust
Numeric value for x-axis label vertical justification
- ylab
A character string for y-axis label
- ylabAngle
Numeric value for y-axis label angle
- ylabhjust
Numeric value for y-axis label horizontal justification
- ylabvjust
Numeric value for y-axis label vertical justification
- axisLabSize
Numeric value for axis label size
- title
A character string for the plot title
- subtitle
A character string for the plot subtitle
- caption
A character string for the plot caption
- titleLabSize
Numeric value for title label size
- subtitleLabSize
Numeric value for subtitle label size
- captionLabSize
Numeric value for caption label size
- colBar
A character string for the color of the bar chart
- drawCumulativeSumLine
Logical value to indicate if the cumulative sum line should be plotted
- colCumulativeSumLine
A character string for the color of the cumulative sum line
- sizeCumulativeSumLine
Numeric value for the size of the cumulative sum line
- drawCumulativeSumPoints
Logical value to indicate if the cumulative sum points should be plotted
- colCumulativeSumPoints
A character string for the color of the cumulative sum points
- sizeCumulativeSumPoints
Numeric value for the size of the cumulative sum points
- hline
A numeric value for horizontal line
- hlineType
A character string for the type of horizontal line
- hlineCol
A character string for the color of the horizontal line
- hlineWidth
Numeric value for the width of the horizontal line
- vline
A numeric value for vertical line
- vlineType
A character string for the type of vertical line
- vlineCol
A character string for the color of the vertical line
- vlineWidth
Numeric value for the width of the vertical line
- gridlines.major
Logical value to indicate if major gridlines should be plotted
- gridlines.minor
Logical value to indicate if minor gridlines should be plotted
- borderWidth
Numeric value for the width of the border
- borderColour
A character string for the color of the border
- plot
Logical value to indicate if the plot should be plotted
- export
Logical value to indicate if the plot should be exported as PNG and PDF