proteinPlot: Create Line Plots

In Scavetta/complexomics: Complexome Profiling Analysis package

Create Line Plots

Description

This function creates a line plot for a proteins in dataFrame specified by protein

Usage

proteinPlot(
  dataFrame,
  protein,
  max_frac,
  grid = TRUE,
  titleLabel = "all",
  titleAlign = "left",
  ylabel = "Relative Protein Abundance",
  xlabel = "Fraction",
  legendLabel = "Condition",
  labelled = "Labeled",
  unlabelled = "Unlabeled",
  controlSample = "",
  textSize = 12,
  axisTextSize = 8
)

Arguments

dataFrame	data frame, contains columns: 'Protein Group Accessions' character; 'Protein Descriptions' character;bFraction integer; isLabel character ("TRUE"/"FALSE" values);'Precursor Area' double; scenario character
protein	character the protein of interest
max_frac	integer total number of fractions
grid	logical specifies presence/absence of gridline in the plot
titleLabel	character, if it is 'all' or 'GN', it specifies whether to show full label or just the gene name, if any other character is used, the value of titleLabel will be used as plot title
titleAlign	character one of the 'left', 'center'/'centre', 'right', specifies alignment of the title in plot
ylabel	character
xlabel	character
legendLabel	character
labelled	character label to be used for isLabel == TRUE
unlabelled	character label to be used for isLabel == FALSE
controlSample	character, either labelled or unlabelled, this setting will adjust plot coloring based on which sample is a control
textSize	numeric, size of text in the plot
axisTextSize	numeric, size of axis labels in the plot

Value

a plot

Examples

##Use example normalised proteins file
inputFile <- system.file("extData", "dataNormProts.txt", package = "ComPrAn")
#read file in and change structure of table to required format
forAnalysis <- protImportForAnalysis(inputFile)
##example plot:
protein <- "P52815"
max_frac <- 23
proteinPlot(forAnalysis, protein, max_frac)

Scavetta/complexomics documentation built on Oct. 1, 2022, 2:15 a.m.