plotAllPheatmapsFor2CategoriesFromMyGR: Plot pheatmaps for categories of 2 specific features for a...

In lldelisle/analysePeaks: Compare, annotate your peaks

Description

Plot pheatmaps for categories of 2 specific features for a Set and a Ref

Usage

plotAllPheatmapsFor2CategoriesFromMyGR(
  myGRs,
  nameOfColWithCate1,
  cateNames1,
  what1,
  nameOfColWithCate2,
  cateNames2,
  what2,
  stringSet,
  nameOfRef,
  fontsize = 10,
  display_numbers = T,
  whichPheatmaps = 1:5,
  plotProportion = F
)

Arguments

myGRs	a GRangeList of 2 elements which are the set and the ref and should have 2 meta columns 'nameOfColWithCate1' and 'nameOfColWithCate2'
nameOfColWithCate1	a string which gives the column to display
cateNames1	the names of the categories, in the good order, for the first feature
what1	the name of the first measure
nameOfColWithCate2	a string which gives the column to display for the first feature
cateNames2	the names of the categories, in the good order, for the second feature
what2	the name of the second measure
stringSet	the name of the set for the second feature
nameOfRef	the name of the reference
fontsize	base fontsize for the heatmaps (default is 10)
display_numbers	logical whether to display the numbers in the pheatmaps (default is TRUE)
whichPheatmaps	a vector containing the pheatmaps to plot between 1 to 5 with: 1=shared by all Set and at least one Ref or shared by all Set and Ref 2=shared by all Set none of the Ref or shared by all Set no Ref 3=shared by all Set: all or all shared by all Set 4=shared by all Ref in not a single of the set or Ref in not a single of the set 5=shared by all Ref: all or all Ref (default is 1:5)
plotProportion	logical whether to display the pheatmap 1, 2, and 4 should be plot as proportion of pheatmap 3 and 5 (default is FALSE)

Value

Plot but do not return anything

lldelisle/analysePeaks documentation built on July 10, 2021, 1:02 p.m.