This function creates boxplots for the continuous variables in the provided data.
If the number of columns in data exceeds bin_size, the plots are split across multiple
chunks. If an output_file is provided, the function writes the plots to that PDF file;
otherwise, it returns a list of ggplot2 objects.
Usage
cyt_bp(
data,
output_file = NULL,
bin_size = 25,
mf_row = c(1, 1),
y_lim = NULL,
scale = NULL,
progress = NULL
)Arguments
- data
A matrix or data frame containing the raw data to be plotted.
- output_file
Optional. A file path to save the plots as a PDF file. If NULL, the function returns a list of ggplot2 objects.
- bin_size
An integer specifying the maximum number of box plots to display per chunk.
- mf_row
A numeric vector of length two specifying the layout (rows and columns) in the PDF output. (Not used when returning ggplot2 objects.)
- y_lim
An optional numeric vector defining the y-axis limits for the plots.
- scale
An optional character string. If set to "log2", numeric columns are log2-transformed.
Examples
data_df <- ExampleData1
cyt_bp(data_df[,-c(1:3)], output_file = NULL, scale = "log2")
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