CoNI (version 0.1.0)

create_stackedGlobalBarplot_perTreatment: Stacked Global Barplot (One treatment)

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.

Usage

create_stackedGlobalBarplot_perTreatment(
  CompTreatTable,
  treat = NULL,
  xlb = "Vertex-Class Pairs",
  ylb = "Number of pairs",
  max_pairsLegend = 2,
  mx.overlaps = Inf,
  szggrepel = 6,
  force = 0.1,
  szTitle = 12,
  szaxisTxt = 12,
  szaxisTitle = 12,
  ylim = NULL
)

Arguments

CompTreatTable

Output of Compare_VertexClasses_sharedEdgeFeatures

treat

Name of treatment to display. It should match the column name in the output of Compare_VertexClasses_sharedEdgeFeatures

xlb

Name for x-axis

ylb

Name for y-axis

max_pairsLegend

If number of Edge Features >= max_pairsLegend, display number of Edge Features as label with ggrepel

mx.overlaps

Max number of overlaps ggrepel

szggrepel

Size ggrepel labels

force

Repelling force for ggrepel labels

szTitle

Size Title

szaxisTxt

Size axis text

szaxisTitle

Size axis titles

ylim

Optional y-limits of the plot

Value

A ggplot object to create a stacked barplot. The stacked barplot shows the vertex-class pairs profile of all shared edge features but restricted to a single treatment. Every bar consists of multiple edge features (stacked) that are represented with different colors

Examples

# NOT RUN {
data(VertexClassesSharedGenes_HFDvsChow)
create_stackedGlobalBarplot_perTreatment(CompTreatTable = VertexClassesSharedGenes_HFDvsChow,
                                         treat = "HFD",
                                         max_pairsLegend = 9,
                                         xlb = "Metabolite-class-pairs")
# }