cytostab: Evaluate parameter stability with respect to gating sheme

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

Evaluate parameter stability with respect to gating sheme

Description

Evaluate parameter stability with respect to gating sheme

Usage

cytostab(
  df_samples_subset,
  protein_names,
  condition,
  group = "donor",
  cell_n_min = Inf,
  cell_n_subsample = 0
)

Arguments

df_samples_subset	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
condition	The column name of the condition variable
group	The column name of the group variable
cell_n_min	Remove samples that are below this cell counts threshold
cell_n_subsample	Subsample samples to have this maximum cell count

Value

A data frame

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))
stab <- CytoGLMM::cytostab(df,
                           protein_names = protein_names,
                           condition = "condition",
                           group = "donor")
stab

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