A scatter plot of the UMAP dimensions generated by DecontX with cells colored by the estimated percentation of contamation.
plotDecontXContamination( x, batch = NULL, colorScale = c("blue", "green", "yellow", "orange", "red"), size = 1 )
x | Either a SingleCellExperiment with |
---|---|
batch | Character. Batch of cells to plot. If |
colorScale | Character vector. Contains the color spectrum to be passed
to |
size | Numeric. Size of points in the scatterplot. Default 1. |
Returns a ggplot
object.
See decontX
for a full example of how to estimate
and plot contamination.
Shiyi Yang, Joshua Campbell