Plot histograms for TMT tag intensities including notch annotation

The distribution of TMT intensities obtained by Orbitrap has been observed to have a 'notch' where few values are observed. This function returns a histogram of TMT tag intensities per sample, annotated with the proportion of intensities below the upper boundary of the notch region

plot_TMT_notch(
  obj,
  notch_lower = 3.75,
  notch_upper = 5.75,
  facet_by_sample = FALSE
)

Arguments

obj

MSnSet containing PSM level TMT intensities

notch_lower

numeric. Lower boundary of notch.

notch_upper

numeric. Upper boundary of notch.

facet_by_sample

logical. Facet the plot by sample.

Value

ggplot object.