extendRegions: Extend Regions

Description Usage Arguments Value Note See Also Examples

View source: R/extendRegions.R

Description

Extends the regions a number of bases at each end. Negative numbers will reduce the region instead of enlarging it.

Usage

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extendRegions(A, extend.start=0, extend.end=0)

Arguments

A

a region set in any of the accepted formats by toGRanges (GenomicRanges, data.frame, etc...)

extend.start

an integer. The number of bases to be subtracted from the start of the region.

extend.end

an integer. The number of bases to be added at the end of the region.

Value

a GenomicRanges object with the extended regions.

Note

If negative values are provided and the new extremes are "flipped", the function will fail. It does not check if the extended regions fit into the genome.

See Also

plotRegions, toDataframe, toGRanges, subtractRegions, splitRegions, overlapRegions, commonRegions, mergeRegions, joinRegions

Examples

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A <- data.frame("chr1", c(10, 20, 30), c(13, 28, 40))

extend1 <- extendRegions(A, extend.start=5, extend.end=2)

extend2 <- extendRegions(A, extend.start=15)

extend3 <- extendRegions(A, extend.start=-1)

plotRegions(list(A, extend1, extend2, extend3), chromosome="chr1", regions.labels=c("A", "extend1", "extend2", "extend3"), regions.colors=4:1)

regioneR documentation built on May 20, 2017, 9:37 p.m.

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