plotTotalReads: Plot Total Reads

Description Usage Arguments Value Author(s) See Also Examples

Description

Plot Total Reads

Usage

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plotTotalReads(object, ...)

## S4 method for signature 'bcbioRNASeq'
plotTotalReads(object, interestingGroups, limit = 10L,
  fill = scale_fill_hue(), flip = TRUE, title = "total reads")

Arguments

object

Object.

...

Additional arguments.

interestingGroups

Character vector denoting groups of interest that define the samples. If left unset, defaults to sampleName.

limit

Threshold to denote on the plot, using a dashed line.

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().

flip

Flip x and y axes.

title

Title of plot.

Value

ggplot.

Author(s)

Michael Steinbaugh, Rory Kirchner, Victor Barrera

See Also

Other Quality Control Functions: plot5Prime3PrimeBias, plotCorrelationHeatmap, plotCountDensity, plotCountsPerGene, plotDispEsts, plotExonicMappingRate, plotGenderMarkers, plotGeneSaturation, plotGenesDetected, plotIntronicMappingRate, plotMappedReads, plotMappingRate, plotMeanSD, plotPCACovariates, plotPCA, plotRRNAMappingRate

Examples

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