A plotting function which visualizes outputs from the runBarcodeRankDrops function stored in the colData slot of the SingleCellExperiment object via scatterplot.
plotBarcodeRankScatter(
inSCE,
sample = NULL,
defaultTheme = TRUE,
dotSize = 0.1,
title = NULL,
titleSize = 18,
xlab = NULL,
ylab = NULL,
axisSize = 12,
axisLabelSize = 15,
legendSize = 10,
combinePlot = "none",
sampleRelHeights = 1,
sampleRelWidths = 1
)
Input SingleCellExperiment object with saved
dimension reduction components or a variable with saved results from
runBarcodeRankDrops
. Required.
Character vector or colData variable name. Indicates which
sample each cell belongs to. Default NULL
.
Removes grid in plot and sets axis title size to
10
when TRUE
. Default TRUE
.
Size of dots. Default 0.1
.
Title of plot. Default NULL
.
Size of title of plot. Default 18
.
Character vector. Label for x-axis. Default NULL
.
Character vector. Label for y-axis. Default NULL
.
Size of x/y-axis ticks. Default 12
.
Size of x/y-axis labels. Default 15
.
size of legend. Default 10
.
Must be either "all"
, "sample"
, or
"none"
. "all"
will combine all plots into a single .ggplot
object, while "sample"
will output a list of plots separated by
sample. Default "all"
.
If there are multiple samples and combining by
"all"
, the relative heights for each plot. Default 1
.
If there are multiple samples and combining by
"all"
, the relative widths for each plot. Default 1
.
a ggplot object of the scatter plot.
data(scExample, package = "singleCellTK")
sce <- runBarcodeRankDrops(inSCE = sce)
#> Sat Mar 18 10:28:20 2023 ... Running 'barcodeRanks'
plotBarcodeRankScatter(inSCE = sce)
#> Warning: Transformation introduced infinite values in continuous y-axis