boxplot_data: Plots boxplots showing Gene Expression across samples

In jankinsan/BatchEC: Evaluates and corrects batch effects in gene expression data

Description

Plots boxplots that can be used to see the change in gene expression after adjustment for batch effects using ComBat

Usage

boxplot_data(expr, when, NameString, batch = "Batch", return.plot = FALSE)

Arguments

expr	A dataframe containing gene expression values. Rows are genes, columns are samples. Could be the dataframe before or after correction
when	String indicating if the expression data is from before or after correction. Use "before" or "after"
NameString	String that will be added in all output filenames. Default=NA.
batch	The title of the batch for which you want to evaluate and do the correction. Default = "Batch"
return.plot	Should the plot be returned as an object to the environment? If FALSE, plot is saved to a pdf file, if TRUE, plot is returned to the environment. Default = FALSE

jankinsan/BatchEC documentation built on Sept. 9, 2021, 8:12 p.m.