pca_plot_wrap: PCA plot wrapper

In MarthaCooper/NanoStringClustR: NanoString data normalization and differential gene expression analysis

Description

PCA plot wrapper

Usage

pca_plot_wrap(
  count_set = NULL,
  norm_method = "housekeeping_scaled",
  title = NA,
  comp1 = 1,
  comp2 = 2,
  legend = TRUE,
  label = TRUE,
  colors = NA
)

Arguments

count_set	A count_set of mRNA or miRNA counts generated using count_set
norm_method	Name of the count_set assay to be plotted. Options are "counts", "background_corrected","positive_control_scaled", "housekeeping_scaled", "geNorm_housekeeping", "all_endogenous_scaled", "loess", "vsn", "quantile", "ruvIII". Default = "housekeeping_scaled"
title	Plot title
comp1	PCA compenent to plot on the x axis. Default = Comp 1
comp2	PCA compenent to plot on the y axis Default = Comp 1
legend	Option for plot legend. Default = TRUE
label	Option to label points with sample id. Default= TRUE
colors	Option to define colour scheme. Default = NA

Value

pca plots

MarthaCooper/NanoStringClustR documentation built on June 25, 2021, 9:41 p.m.