plotZerosVsDepth: Plot Percentage of Zeros vs. Library Depth

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

Description

This function helps us visualize the dropout rate.

Usage

plotZerosVsDepth(object, ...)

## S4 method for signature 'SingleCellExperiment'
plotZerosVsDepth(object, interestingGroups,
  color = NULL, title = "zeros vs. depth")

## S4 method for signature 'seurat'
plotZerosVsDepth(object, interestingGroups, color = NULL,
  title = "zeros vs. depth")

Arguments

object	Object.
...	Additional arguments.
interestingGroups	Character vector of interesting groups. Must be formatted in camel case and intersect with sampleData() colnames.
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().
title	Plot title.

Value

ggplot.

Author(s)

Rory Kirchner, Michael Steinbaugh

See Also

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

Examples

# SingleCellExperiment ====
plotZerosVsDepth(cellranger_small)

roryk/bcbioSinglecell documentation built on May 27, 2019, 10:44 p.m.