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

In CoNI: Correlation Guided Network Integration (CoNI)

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)

CoNI documentation built on Sept. 30, 2021, 5:09 p.m.