SingleDimPlot: Plot a single dimension
In Seurat: Tools for Single Cell Genomics

SingleDimPlot

R Documentation

Plot a single dimension

Description

Plot a single dimension

Usage

SingleDimPlot(
  data,
  dims,
  col.by = NULL,
  cols = NULL,
  pt.size = NULL,
  shape.by = NULL,
  alpha = 1,
  alpha.by = NULL,
  order = NULL,
  label = FALSE,
  repel = FALSE,
  label.size = 4,
  cells.highlight = NULL,
  cols.highlight = "#DE2D26",
  sizes.highlight = 1,
  na.value = "grey50",
  raster = NULL,
  raster.dpi = NULL
)

Arguments

`data`	Data to plot
`dims`	A two-length numeric vector with dimensions to use
`col.by`	...
`cols`	Vector of colors, each color corresponds to an identity class. This may also be a single character or numeric value corresponding to a palette as specified by `brewer.pal.info`.By default, ggplot2 assigns colors
`pt.size`	Adjust point size for plotting
`shape.by`	If NULL, all points are circles (default). You can specify any cell attribute (that can be pulled with `FetchData`) allowing for both different colors and different shapes on cells.
`alpha`	Alpha value for plotting (default is 1)
`alpha.by`	Mapping variable for the point alpha value
`order`	Specify the order of plotting for the idents. This can be useful for crowded plots if points of interest are being buried. Provide either a full list of valid idents or a subset to be plotted last (on top).
`label`	Whether to label the clusters
`repel`	Repel labels
`label.size`	Sets size of labels
`cells.highlight`	A list of character or numeric vectors of cells to highlight. If only one group of cells desired, can simply pass a vector instead of a list. If set, colors selected cells to the color(s) in `cols.highlight` and other cells black (white if dark.theme = TRUE); will also resize to the size(s) passed to `sizes.highlight`
`cols.highlight`	A vector of colors to highlight the cells as; will repeat to the length groups in cells.highlight
`sizes.highlight`	Size of highlighted cells; will repeat to the length groups in cells.highlight
`na.value`	Color value for NA points when using custom scale.
`raster`	Convert points to raster format, default is `NULL` which will automatically use raster if the number of points plotted is greater than 100,000
`raster.dpi`	the pixel resolution for rastered plots, passed to geom_scattermore(). Default is c(512, 512)