plotMahal {CATALYST} | R Documentation |
Histogram of counts and plot of yields as a function of separation cutoffs.
plotMahal(x, which, assay = "exprs", n = 1000)
x |
|
which |
character string. Specifies which barcode to plot. |
assay |
character string specifying which assay to use. |
n |
numeric. Number of cells to subsample; use NULL to include all. |
Plots all inter-barcode interactions for the population specified
by argument which
. Events are colored by their Mahalanobis distance.
Helena L Crowell helena.crowell@uzh.ch
Zunder, E.R. et al. (2015). Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm. Nature Protocols 10, 316-333.
data(sample_ff, sample_key) sce <- prepData(sample_ff, by_time = FALSE) sce <- assignPrelim(sce, sample_key) sce <- estCutoffs(sce) sce <- applyCutoffs(sce) plotMahal(sce, which = "B3")