Produces a barplot showing how query regions of interest are distributed across a given partition list

Source: R/partition-plots.R

This function can be used to test a GRanges object against any arbitrary list of genome partitions. The partition list is a priority-ordered list of GRanges objects. Each region in the query will be assigned to a given partition that it overlaps with the highest priority.

plotPartitions(assignedPartitions, numbers = FALSE, stacked = FALSE)

Arguments

assignedPartitions

A table holding the frequency of assignment to each of the partitions. Produced by calcPartitions

numbers

logical indicating whether raw overlaps should be plotted instead of the default percentages

stacked

logical indicating that data should be plotted as stacked bar plot

Value

A ggplot object using a barplot to show the distribution of the query regions across a given partition list.

Examples

p = calcPartitionsRef(vistaEnhancers, "hg19")
#> Calculating overlaps...
partPlot = plotPartitions(p)
partCounts = plotPartitions(p, numbers=TRUE)
partPlot = plotPartitions(p, stacked=TRUE)