getstackedGlobalBarplot_and_Grid {CoNI}

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

Description

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.

Usage

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

Value

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)