plot_pca_projection_and_save: Plot PCA projection with save option

In KSheu/ksheu.library1: KSheu Library1

Plot PCA projection with save option

Description

Plot PCA projection with save option

Usage

plot_pca_projection_and_save(scores.file, info.name, info.type,
  PCx = "PC1", PCy = "PC2", factor.levels = levels(info.type),
  aes_fill = NULL, savename, savePlot = F, width = 3, height = 2,
  title = "", label = F, savetype = ".pdf", w = 6, h = 3,
  aspect.ratio = 0.8, legend = F, legendname = "default",
  colors = colpalette[1:4], psize = 2.5, plotLabelname = "none")

Arguments

scores.file	PCA score file (scores file, output of PCA_from_file)
info.name	vector of sample names
info.type	vector of sample types in same order as names
PCx, PCy	PCs to display
factor.levels	ie. levels <- c("Undifferentiated", "Neural crest-like", "Transitory", "Melanocytic"))
aes_fill	column header to color samples by
savename	prefix to save file by
savePlot	default=F
width, height	size of the plot
title	title of the plot
label	column name to label samples by on PCA plot, default = F
savetype	".pdf" or ".png" or ".tiff", etc.
colors	ie. colpalette <- c("Cluster 1"="#4F81BD","Cluster 2"="#C0504D","Cluster 3"="#8064A2","Cluster 4"="#9BBB59")

KSheu/ksheu.library1 documentation built on Jan. 28, 2025, 3:26 p.m.