QC Histogram Plots

Custom histogram for initial QC checks including lines for thresholding

QC_Histogram(
  seurat_object,
  features,
  low_cutoff = NULL,
  high_cutoff = NULL,
  cutoff_line_width = deprecated(),
  cutoff_linewidth = NULL,
  split.by = NULL,
  bins = 250,
  colors_use = "dodgerblue",
  num_columns = NULL,
  plot_title = NULL,
  assay = NULL,
  print_defaults = FALSE
)

Arguments

seurat_object

Seurat object name.

features

Feature from meta.data, assay features, or feature name shortcut to plot.

low_cutoff

Plot line a potential low threshold for filtering.

high_cutoff

Plot line a potential high threshold for filtering.

cutoff_line_width

. See cutoff_linewidth.

cutoff_linewidth

numerical value for thickness of cutoff lines, default is NULL, uses ggplot2 defaults.

split.by

Feature to split plots by (i.e. "orig.ident").

bins

number of bins to plot default is 250.

colors_use

color to fill histogram bars, default is "dodgerblue".

num_columns

Number of columns in plot layout.

plot_title

optional, vector to use for plot title. Default is the name of the variable being plotted.

assay

assay to pull features from, default is active assay.

print_defaults

return list of accepted default shortcuts to provide to features instead of full name.

Value

A patchwork object

Examples

if (FALSE) {
QC_Histogram(seurat_object = object, features = "nFeature_RNA")
}