plot_prcomp: Plot PCA of subsampled data using ggplot

In ChristofSeiler/CytoGLMM: Conditional Differential Analysis for Flow and Mass Cytometry Experiments

Plot PCA of subsampled data using ggplot

Description

Plot PCA of subsampled data using ggplot

Usage

plot_prcomp(
  df_samples,
  protein_names,
  color_var = "treatment",
  subsample_size = 10000,
  repel = TRUE
)

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
color_var	A column name
subsample_size	Subsample per color_var variable
repel	Repel labels

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_prcomp(df,
                      protein_names = protein_names,
                      color_var = "condition")

ChristofSeiler/CytoGLMM documentation built on April 21, 2023, 3:38 a.m.