a region set in any of the accepted formats by toGRanges (GenomicRanges, data.frame, etc...)
B
a region set in any of the accepted formats by toGRanges (GenomicRanges, data.frame, etc...)
regions.labels
vector indicating the labels for the y axes.
regions.colors
character vector indicating the colors for the regions.
...
Arguments to be passed to methods, such as graphical parameters (see par).
@return A plot is created on the current graphics device.
See Also
overlapPermTest, overlapRegions
Examples
A <- data.frame(chr=1, start=c(1,15,24,40,50), end=c(10,20,30,45,55))
B <- data.frame(chr=1, start=c(2,12,28,35), end=c(5,25,33,43))
overlapGraphicalSummary(A, B, regions.labels=c("A","B"), regions.colors=c(4,5,6))
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(regioneR)
Loading required package: memoise
Loading required package: GenomicRanges
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
unique, unsplit
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
colMeans, colSums, expand.grid, rowMeans, rowSums
Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: BSgenome
Loading required package: Biostrings
Loading required package: XVector
Loading required package: rtracklayer
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/regioneR/overlapGraphicalSummary.Rd_%03d_medium.png", width=480, height=480)
> ### Name: overlapGraphicalSummary
> ### Title: Overlap Graphical Summary
> ### Aliases: overlapGraphicalSummary
>
> ### ** Examples
>
> A <- data.frame(chr=1, start=c(1,15,24,40,50), end=c(10,20,30,45,55))
>
> B <- data.frame(chr=1, start=c(2,12,28,35), end=c(5,25,33,43))
>
> overlapGraphicalSummary(A, B, regions.labels=c("A","B"), regions.colors=c(4,5,6))
>
>
>
>
>
>
> dev.off()
null device
1
>