Plot a tSNE or umap colored by feature.
Usage
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
)Arguments
- 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
pretty_palette- 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
