Target protein abundance plot

Generate bar, box, or violin plots for selected protein(s) of interest.

Usage

visualize.target(
  dataSet,
  type = "bar",
  facet = TRUE,
  listName = c(),
  regexName = c(),
  by = NULL
)

Arguments

dataSet

A data frame containing the data signals.

type

A character string specifying the plot type. Allowable options include:

• "bar": Bar chart.

• "boxplot": Boxplot.

• "violin": Violin plot.

facet

A logical value (default = TRUE) specifying whether to facet the plot by protein.

listName

A character vector specifying proteins for exact matching to highlight.

regexName

A character vector specifying proteins for regular expression pattern matching to highlight.

by

A character string (default = "PG.ProteinName" for Spectronaut, default = "AccessionNumber" for Scaffold) specifying the information to which listName and/or regexName filter is applied. Allowable options include:

• For Spectronaut: "PG.Genes", "PG.ProteinAccession", "PG.ProteinDescriptions", and "PG.ProteinName".

• For Scaffold: "ProteinDescriptions", "AccessionNumber", and "AlternateID".

Value

An object of class ggplot.