plot_dims {clustifyr} | R Documentation |
Plot a tSNE or umap colored by feature.
plot_dims( data, x = "UMAP_1", y = "UMAP_2", feature = NULL, legend_name = "", c_cols = pretty_palette2, d_cols = NULL, pt_size = 0.25, alpha_col = NULL, group_col = NULL, scale_limits = NULL, do_label = FALSE, do_legend = TRUE, do_repel = TRUE )
data |
input data |
x |
x variable |
y |
y variable |
feature |
feature to color by |
legend_name |
legend name to display, defaults to no name |
c_cols |
character vector of colors to build color gradient
for continuous values, defaults to |
d_cols |
character vector of colors for discrete values. defaults to RColorBrewer paired palette |
pt_size |
point size |
alpha_col |
whether to refer to data column for alpha values |
group_col |
group by another column instead of feature, useful for labels |
scale_limits |
defaults to min = 0, max = max(data$x), otherwise a two-element numeric vector indicating min and max to plot |
do_label |
whether to label each cluster at median center |
do_legend |
whether to draw legend |
do_repel |
whether to use ggrepel on labels |
ggplot object, cells projected by dr, colored by feature
plot_dims( pbmc_meta, feature = "classified" )