facsPlot: Generate a FACS like plot from single-cell RNAseq data

In wjawaid/bglab: Berthold Gottgens lab scRNA seq

Description

Generate a FACS like plot from single-cell RNAseq data

Usage

facsPlot(scd, gene1, gene2, t1 = NULL, t2 = NULL, filterCol = NULL,
  filterVal = NULL, nrpoints = Inf, pch = 16, nbin = 200,
  bandwidth = 0.1, cex = 0.3, colramp = colorRampPalette(brewer.pal(9,
  "YlOrRd")), t.bold = TRUE, t.lty = 2, t.col = "azure", ...)

Arguments

scd	Single Cell Dataset
gene1	Gene to plot on x-axis
gene2	Gene to plot on y-axis
t1	threshold 1
t2	threshold 2
filterCol	perform only on cells with a unique measure on this feature
filterVal	Linked to filterVal
nrpoints	Deafult Inf.
pch	Default 0.3.
nbin	Default 200.
bandwidth	Default 0.1.
cex	Default 0.3.
colramp	See smoothScatter() function.
t.bold	Default TRUE. To draw bold black lines for the thresholds.
t.lty	Default 2. For supplementary threshold line type.
t.col	Default "azure". Colour for supplementary threshold line.
...	Additional parameters passed to smoothScatter()

Details

Generate a FACS like plot from single-cell RNAseq data

Value

generates plot

Author(s)

Wajid Jawaid

wjawaid/bglab documentation built on May 4, 2019, 6:33 a.m.