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

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)