plotMitoRatio: Plot Mitochondrial Transcript Abundance

Description Usage Arguments Value Author(s) See Also Examples

Description

Plot Mitochondrial Transcript Abundance

Usage

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plotMitoRatio(object, ...)

## S4 method for signature 'SingleCellExperiment'
plotMitoRatio(object, geom = c("ecdf",
  "ridgeline", "violin", "histogram", "boxplot"), interestingGroups, max = 1L,
  fill = NULL, trans = "sqrt", title = "mito ratio")

## S4 method for signature 'seurat'
plotMitoRatio(object, geom = c("ecdf", "ridgeline",
  "violin", "histogram", "boxplot"), interestingGroups, max = 1L,
  fill = NULL, trans = "sqrt", title = "mito ratio")

Arguments

object

Object.

...

Additional arguments.

geom

Plot type. Uses match.arg() and defaults to the first argument in the vector.

interestingGroups

Character vector of interesting groups. Must be formatted in camel case and intersect with sampleData() colnames.

max

Recommended maximum value cutoff.

fill

Desired ggplot fill 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_fill_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, plotMitoVsCoding, plotNovelty, plotQC, plotReadsPerCell, plotUMIsPerCell, plotZerosVsDepth

Examples

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# SingleCellExperiment ====
plotMitoRatio(cellranger_small)

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