Description Usage Arguments Value Author(s) See Also Examples
Makes a venn diagram for the regions given the genomic state showing how many regions overlap introns, exons, intergenic regions, none or multiple groups.
1 | vennRegions(annotatedRegions, subsetIndex = NULL, ...)
|
annotatedRegions |
The output from annotateRegions
used on |
subsetIndex |
A vector of to use to subset the regions to use for the
venn diagram. It can be a logical vector of length equal to the number of
regions or an integer vector. If |
... |
Arguments passed to vennDiagram. |
Makes a venn diagram plot for the annotation given the genomic state and the actual venn counts used to make the plot.
Leonardo Collado-Torres
annotateRegions, vennCounts, vennDiagram
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 | ## Load data
library("derfinder")
## Annotate regions
annotatedRegions <- annotateRegions(
regions = genomeRegions$regions,
genomicState = genomicState$fullGenome, minoverlap = 1
)
## Make venn diagram
venn <- vennRegions(annotatedRegions)
## Add title and choose text color
venn2 <- vennRegions(annotatedRegions,
main = "Venn diagram", counts.col =
"blue"
)
## Subset to only significant regions, so you don't have to annotate them
## again
venn3 <- vennRegions(annotatedRegions,
subsetIndex =
genomeRegions$regions$significant == "TRUE", main = "Significant only"
)
|
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