plotCeldaViolin {celda} | R Documentation |
Outputs a violin plot for feature expression data.
plotCeldaViolin(x, ...) ## S4 method for signature 'SingleCellExperiment' plotCeldaViolin( x, features, useAssay = "counts", altExpName = "featureSubset", exactMatch = TRUE, plotDots = TRUE, dotSize = 0.1 ) ## S4 method for signature 'matrix' plotCeldaViolin( x, celdaMod, features, exactMatch = TRUE, plotDots = TRUE, dotSize = 0.1 )
x |
Numeric matrix or a SingleCellExperiment object
with the matrix located in the assay slot under |
... |
Ignored. Placeholder to prevent check warning. |
features |
Character vector. Uses these genes for plotting. |
useAssay |
A string specifying which assay
slot to use if |
altExpName |
The name for the altExp slot to use. Default "featureSubset". |
exactMatch |
Logical. Whether an exact match or a partial match using
|
plotDots |
Boolean. If |
dotSize |
Numeric. Size of points if |
celdaMod |
Celda object of class "celda_G" or "celda_CG". Used only if
|
Violin plot for each feature, grouped by celda cluster
data(sceCeldaCG) plotCeldaViolin(x = sceCeldaCG, features = "Gene_1") data(celdaCGSim, celdaCGMod) plotCeldaViolin(x = celdaCGSim$counts, celdaMod = celdaCGMod, features = "Gene_1")