plotMappedReads: Plot mapped reads

In hbc/bcbioRnaseq: Bcbio RNA-Seq

Plot mapped reads

Description

The number of mapped reads should correspond to the number of total reads.

Usage

plotMappedReads(object, ...)

## S4 method for signature 'bcbioRNASeq'
plotMappedReads(
  object,
  interestingGroups = NULL,
  limit = 10000000L,
  perMillion = TRUE,
  labels = list(title = "Mapped reads", subtitle = NULL, sampleAxis = NULL, metricAxis =
    "reads"),
  flip = getOption(x = "acid.flip", default = TRUE)
)

Arguments

object	Object.
interestingGroups	character. Groups of interest to use for visualization. Corresponds to factors describing the columns of the object.
limit	numeric(1). Threshold limit.
perMillion	logical(1). Display as counts per million.
labels	list. ggplot2 labels. See ggplot2::labs() for details.
flip	logical(1). Flip x and y axes. Recommended for plots containing many samples.
...	Additional arguments.

Value

ggplot.

Note

Updated 2022-05-09.

Author(s)

Michael Steinbaugh, Rory Kirchner, Victor Barrera

Examples

data(bcb)

## bcbioRNASeq ====
plotMappedReads(bcb)

hbc/bcbioRnaseq documentation built on Sept. 15, 2024, 9:10 a.m.