plot_lda {CytoGLMM} | R Documentation |
LDA on marker expression
plot_lda( df_samples, protein_names, group, cor_scaling_factor = 1, arrow_color = "black", marker_color = "black", marker_size = 5 )
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 |
group |
The column name of the group variable |
cor_scaling_factor |
Scaling factor of circle of correlations |
arrow_color |
Color of correlation circle |
marker_color |
Colors of marker names |
marker_size |
Size of markerr names |
ggplot2
object
set.seed(23) df <- generate_data() protein_names <- names(df)[3:12] df <- dplyr::mutate_at(df, protein_names, function(x) asinh(x/5)) df$condition <- rep(c("A", "B", "C", "D"), each = length(df$condition)/4) CytoGLMM::plot_lda(df, protein_names = protein_names, group = "condition", cor_scaling_factor = 2)