DotPlot_my2: My enhanced DotPlot

In DawnEve/GEB: A R pkg to decorate Seurat output (single-cell RNA-seq tool)

My enhanced DotPlot

Description

v0.2 can cluster genes

Usage

DotPlot_my2(
  object,
  features,
  assay = NULL,
  cols = colorRampPalette(colors = c("lightyellow", "orangered", "red4"), bias = 0.5,
    interpolate = c("spline"))(100),
  col.min = -2.5,
  col.max = 2.5,
  dot.min = 0,
  dot.scale = 6,
  idents = NULL,
  group.by = NULL,
  split.by = NULL,
  cluster.idents = FALSE,
  scale = TRUE,
  scale.by = "radius",
  scale.min = NA,
  scale.max = NA,
  cluster.features = T,
  quick = T,
  circle_size = 6,
  base_size = list(x = 14, y = 14, top = 14, legend = 14),
  rel_widths = c(1, 8),
  color_list = NULL
)

Arguments

object	Seurat obj
features	gene symbol
assay	which assay
cols	colors for expression
col.min	min?
col.max	max?
dot.min	dot min size
dot.scale	dot scale method
idents	which ident to show
group.by	group by
split.by	split by
cluster.idents	whether cluster idents?
scale	scale?
scale.by	scale by?
scale.min	min?
scale.max	max?
cluster.features	whether cluster idents?
quick	return normal ggplot2 obj as Seurat
circle_size	circle size left of y axis
base_size	list of font size
rel_widths	relative widths, only effective when quick =F
color_list	color list for each cluster

Examples

DotPlot_my2(sce, features = c("CD3D", "CD79A"))

DawnEve/GEB documentation built on July 6, 2022, 7:05 p.m.