Plot PCA
Usage
plotPCA(
CS,
featMethod,
fitData,
plotData,
PCx = 1,
PCy = 2,
color = NULL,
shape = NULL,
plotBars = FALSE,
plotArrows = FALSE,
nLoadings = NULL
)Arguments
- CS
CytoScan object
- featMethod
Which features to use
- fitData
Which data to fit PCA on ("test", "reference" or "all")
- plotData
Which data to plot based on PCA fit ("test", "reference" or "all")
- PCx
Which PC to plot along x-axis
- PCy
Which PC to plot along y-axis
- color
Category used for point color ("outlier", "novelty", "labels")
- shape
Category used for point shape ("outlier", "novelty", "labels")
- plotBars
Whether to plot loading coefficients as bars along
- plotArrows
Whether to plot loadings as arrows
- nLoadings
Number of loadings to plot. Selects most influential