getstackedGlobalBarplot_and_Grid function

Stacked Global Barplot Side-by-side (two treatments)

This function will create a stacked barplot from the output of Compare_VertexClasses_sharedEdgeFeatures using all shared Edge Features (e.g., genes) between two treatments. Results of both Treatments are side by side for better comparison.

getstackedGlobalBarplot_and_Grid(
  CompTreatTable,
  Treat1,
  Treat2,
  ggrep = TRUE,
  max_pairsLegend = 1,
  force = 0.1,
  mx.overlaps = Inf,
  szggrepel = 6,
  xlb = "Vertex-Class Pairs",
  ...
)

Arguments

• CompTreatTable: Output of Compare_VertexClasses_sharedEdgeFeatures
• Treat1: Name treatment 1 as in table CompTreatTable
• Treat2: Name treatment 2 as in table CompTreatTable
• ggrep: logical. If TRUE includes ggrepel labels for every bar
• max_pairsLegend: If number of Edge Features >= max_pairsLegend, display number of Edge Features as ggrepel label
• force: Repelling force for ggrepel labels
• mx.overlaps: Max number of overlaps ggrepel
• szggrepel: Size ggrepel labels
• xlb: Name for x-axis
• ...: Other parameters for inner functions, mainly ggplot2 visual parameters

Returns

A gtable containing stacked barplots. The barplots show the vertex-class pairs profile of all shared edge features between two treatments (one bar plot per treatment). Every bar consists of multiple edge features that are depicted with different colors

Examples

data(VertexClassesSharedGenes_HFDvsChow)
VCSGs<-VertexClassesSharedGenes_HFDvsChow
HFD_vs_Chow_stackedBarplot<-getstackedGlobalBarplot_and_Grid(VCSGs,
                                                             Treat1 = "HFD",
                                                             Treat2 = "Chow",
                                                             xlb = "Metabolite-class-pairs",
                                                             max_pairsLegend=9)
plot(HFD_vs_Chow_stackedBarplot)