make_UpSet_plot: Make an UpSet plot from a list of unique identifiers
In davidsbutcher/viztools: Innovative visualizations for top-down proteomics

Description Usage Arguments Value Examples

View source: R/UpSet_maker.R

make_UpSet_plot() creates an UpSet plot from a list of unique identifiers such as UniProt accession numbers or proteoform record numbers.

make_UpSet_plot(
  UpSetlist,
  plotType = "Protein",
  barColor = "#4C4184",
  savePDF = FALSE,
  outputDir = getwd()
)

`UpSetlist`	A list of lists of identifiers properly formatted for use by the UpSetR::upset() function. Alternatively, a data frame with columns named by fraction number and containing unique identifiers for proteins/proteoforms.
`plotType`	Type of UpSet plot to make. This only affects the axis titles and filename. Typical values are "Protein" or "Proteoform". Defaults to "Protein".
`barColor`	Color of bars in the UpSet plot. Defaults to MagLab purple ("#4C4184").
`savePDF`	Boolean value, controls whether to save PDF output to outputDir. Defaults to FALSE.
`outputDir`	Directory to save PDF output. Defaults to R working directory.

An UpSet plot created by UpSetR::upset(). If savePDF is TRUE, a PDF is saved to the output directory.

make_UpSet_plot(
   list(
      list(
         "Fraction1" = c("A", "B", "C", "D", "E"),
         "Fraction2" = c("C", "D", "E", "F", "G")
      )
   )
)