plotMitoVsCoding: Plot Mitochondrial vs. Coding Counts

In WeiSong-bio/roryk-bcbioSinglecell: Single-Cell RNA-Seq Utilities

Description

Plot Mitochondrial vs. Coding Counts

Usage

plotMitoVsCoding(object, ...)

## S4 method for signature 'SingleCellExperiment'
plotMitoVsCoding(object, interestingGroups,
  trendline = FALSE, color = scale_color_hue(), trans = "log2",
  title = "mito vs. coding")

## S4 method for signature 'seurat'
plotMitoVsCoding(object, interestingGroups,
  trendline = FALSE, color = scale_color_hue(), trans = "log2",
  title = "mito vs. coding")

Arguments

object	Object.
...	Additional arguments.
interestingGroups	Character vector of interesting groups. Must be formatted in camel case and intersect with sampleData() colnames.
trendline	Include trendline on plot.
color	Desired ggplot color scale. Must supply discrete values. When set to NULL, the default ggplot2 color palette will be used. If manual color definitions are desired, we recommend using ggplot2::scale_color_manual().
trans	Name of the axis scale transformation to apply. See help("scale_x_continuous", "ggplot2") for more information.
title	Plot title.

Value

ggplot.

Author(s)

Michael Steinbaugh, Rory Kirchner

See Also

Other Quality Control Functions: barcodeRanksPerSample, filterCells, metrics, plotCellCounts, plotGenesPerCell, plotMitoRatio, plotNovelty, plotQC, plotReadsPerCell, plotUMIsPerCell, plotZerosVsDepth

Examples

# SingleCellExperiment ====
plotMitoVsCoding(cellranger_small)

WeiSong-bio/roryk-bcbioSinglecell documentation built on July 6, 2019, 12:03 a.m.