MDS on median marker expression

Source: R/plot_mds.R

MDS on median marker expression

plot_mds(
  df_samples,
  protein_names,
  sample_info_names,
  color,
  sample_label = ""
)

Arguments

df_samples

Data frame or tibble with proteins counts, cell condition, and group information
protein_names

A vector of column names of protein to use in the analysis
sample_info_names

Column names that contain information about the cell, e.g. donor, condition, file name, or cell type
color

Column name
sample_label

Column name

Value

cowplot object

Examples

set.seed(23)
df <- generate_data()
protein_names <- names(df)[3:12]
df <- dplyr::mutate_at(df, protein_names, function(x) asinh(x/5))
CytoGLMM::plot_mds(df,
                   protein_names = protein_names,
                   sample_info_names = c("donor", "condition"),
                   color = "condition")