plot_data: Scatterplot of features from meta data or gene expression

In marcalva/diem: Debris-Containing Droplet Identification using EM

Scatterplot of features from meta data or gene expression

Description

Plot variables from meta data or from gene expression. feat_x will be plotted on the x-axis, while feat_y will be plotted on on the y-axis. These variables can come from test_data or the normalized gene expression values of a features.

Usage

plot_data(sce, feat_x = "total_counts", feat_y = "n_genes",
  log_x = FALSE, log_y = FALSE, color = NULL, alpha = 0.1,
  data_type = "test", ret = FALSE)

Arguments

sce	An SCE object.
feat_x	Variable of x axis to plot.
feat_y	Varibale of y axis to plot.
log_x	Boolean indicating whether to log transform the y-axis.
log_y	Boolean indicating whether to log transform the y-axis.
color	Color points by values in this column of test_data, such as Call.
alpha	A numeric value controlling the transparency of the points. From 0 (transparent) to 1 (no transparency).
data_type	Either test or all, specifying the droplets to plot
ret	A logical specifying whether to return the ggplot object or just print it out.

Value

Nothing. If return=TRUE, then return a ggplot object

marcalva/diem documentation built on Jan. 1, 2023, 2:33 a.m.