plot_pca: plot_pca

In nephantes/debrowser_bioconductor_release: Interactive Differential Expresion Analysis Browser

Description

Plots the PCA results for the selected dataset.

Usage

plot_pca(dat = NULL, pcx = 1, pcy = 2, metadata = NULL, color = NULL,
  shape = NULL, size = NULL, textonoff = "Off",
  legendSelect = "samples", input = NULL)

Arguments

dat,	data
pcx,	x axis label
pcy,	y axis label
metadata,	additional data
color,	color for plot
shape,	shape for plot
size,	size of the plot
textonoff,	text on off
legendSelect,	select legend
input,	input param

Value

pca list

Examples

    load(system.file("extdata", "demo", "demodata.Rda",
            package="debrowser"))
    metadata<-cbind(colnames(demodata[,1:6]), 
            colnames(demodata[,1:6]),
            c(rep("Cond1",3), rep("Cond2",3)))
    colnames(metadata)<-c("samples", "color", "shape")
    
    a <- plot_pca(getNormalizedMatrix(
            demodata[rowSums(demodata[,1:6])>10,1:6]),
            metadata = metadata, color = "samples",
            size = 5, shape = "shape")

nephantes/debrowser_bioconductor_release documentation built on May 29, 2019, 7:15 a.m.