Plot exonic mapping rate

Ideally, at least 60 percent of total reads should map to exons for RNA-seq.

plotExonicMappingRate(object, ...)

# S4 method for bcbioRNASeq
plotExonicMappingRate(object,
  interestingGroups = NULL, limit = 0.6, fill = getOption(x =
  "acid.fill.discrete", default = acidplots::scale_fill_synesthesia_d()),
  labels = list(title = "Exonic mapping rate", subtitle = NULL,
  sampleAxis = NULL, metricAxis = "exonic mapping rate (%)"),
  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.
fill	ggproto/ScaleDiscrete. Desired ggplot2 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(). To set the discrete fill palette globally, use: options(acid.fill.discrete = ggplot2::scale_fill_viridis_d())
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 2019-09-16.

Examples

data(bcb)
plotExonicMappingRate(bcb)