plotReadsPerCell: Plot Read Counts per Cell

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

Description

Plot the distribution of read counts for all unfiltered cellular barcodes.

Usage

plotReadsPerCell(object, ...)

## S4 method for signature 'bcbioSingleCell'
plotReadsPerCell(object, interestingGroups,
  geom = c("histogram", "ecdf", "violin", "ridgeline", "boxplot"),
  color = NULL, fill = NULL, title = "reads per cell")

Arguments

object	Object.
...	Additional arguments.
interestingGroups	Character vector of interesting groups. Must be formatted in camel case and intersect with sampleData() colnames.
geom	Plot type. Uses match.arg() and defaults to the first argument in the vector.
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().
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().
title	Plot title.

Value

ggplot.

Author(s)

Michael Steinbaugh, Rory Kirchner

See Also

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

Examples

# bcbioSingleCell ====
plotReadsPerCell(indrops_small, geom = "histogram")
plotReadsPerCell(indrops_small, geom = "ecdf")

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