plot_boxplot: Plot Barcodes Hit

In EmanuelSoda/ScreenR: Package to Perform High Throughput Biological Screening

Plot Barcodes Hit

Description

This function plots a boxplot for each sample for the genes passed as input. It can be used to see the overall trend of a gene and so to visualize if the gene is up or down regulated.

Usage

plot_boxplot(
  screenR_Object,
  genes,
  group_var,
  alpha = 0.5,
  nrow = 1,
  ncol = 1,
  fill_var = "Sample",
  type = "boxplot",
  scales = "free"
)

Arguments

screenR_Object	The ScreenR object obtained using the create_screenr_object
genes	The vector of genes that will be displayed
group_var	The variable that as to be used to filter the data, for example the different treatment
alpha	A value for the opacity of the plot. Allowed values are in the range 0 to 1
nrow	The number of rows in case multiple genes are plotted
ncol	The number of columns in case multiple genes are plotted
fill_var	The variable used to fill the boxplot
type	The type of plot to use "boxplot" or "violinplot"
scales	The scales used for the facet. Possible values can be "free", "fixed" and "free_y"

Value

A boxplot

Examples

object <- get0("object", envir = asNamespace("ScreenR"))

plot_boxplot(object,
    genes = c("Gene_34"),
    group_var = c("T1", "T2", "TRT"), nrow = 1, ncol = 2,
    fill_var = "Day", type = "violinplot"
)

EmanuelSoda/ScreenR documentation built on Sept. 29, 2023, 12:33 a.m.