create_GlobalBarplot function

Vertex-class pairs profile of shared features

This function will create a barplot from the output of Compare_VertexClasses_sharedEdgeFeatures using all shared Edge Features (e.g., genes).

create_GlobalBarplot(
  CompTreatTable,
  treat1 = "Treatment1",
  treat2 = "Treatment2",
  factorOrder = NULL,
  col1 = "red",
  col2 = "blue",
  maxpairs = 1,
  xlb = "Vertex-Class Pairs",
  ylb = "Number of pairs",
  szggrepel = 3.5,
  nudgey = 0.5,
  nudgex = 0.5,
  szaxisTxt = 12,
  szaxisTitle = 12
)

Arguments

• CompTreatTable: Output of Compare_VertexClasses_sharedEdgeFeatures
• treat1: Name of treatment one, default Treatment1. It should match the column names of the output of Compare_VertexClasses_sharedEdgeFeatures
• treat2: Name of treatment one, default Treatment2. It should match the column names of the output of Compare_VertexClasses_sharedEdgeFeatures
• factorOrder: A list specifying the order of the treatments.
• col1: Color for Treatment 1
• col2: Color for Treatment 2
• maxpairs: If number of class-vertex-pairs > maxpairs, display number pairs on top of bar
• xlb: Name for x-axis
• ylb: Name for the y-axis
• szggrepel: Size ggrepel labels
• nudgey: Nudge y ggrepel
• nudgex: Nudge x ggrepel
• szaxisTxt: Size axis text
• szaxisTitle: Size axis title

Returns

A ggplot object for a barplot. The barplot shows the vertex-class pairs profile of all shared edge features between treatments

Examples

data(VertexClassesSharedGenes_HFDvsChow)
create_GlobalBarplot(CompTreatTable = VertexClassesSharedGenes_HFDvsChow,
                     treat1 = "HFD",
                     treat2 = "Chow",
                     factorOrder = c("HFD","Chow"),
                     col1="red",
                     col2 ="blue",
                     maxpairs = 1,
                     szggrepel = 6,
                     szaxisTxt = 15,
                     szaxisTitle = 15,
                     xlb = "Metabolite-pair classes")