splitROIs: Split (larger) ROIs into multiple smaller (overlapping) bins...
In panelcn.mops: CNV detection tool for targeted NGS panel data

Description Usage Arguments Value Examples

Split (larger) ROIs into multiple smaller (overlapping) bins and create new BED file

1 2	splitROIs(oldBedFile, newBedFile, limit = 0, bin = 100, shift = 50, chr = FALSE)

`oldBedFile`	filename of the BED file with absolute or relative path (structure of BED file without header: chromosome, exon start, exon end, exon name)
`newBedFile`	filename of the new BED file that should be created
`limit`	ROIs larger than limit will be split
`bin`	size of bins (in bp) the ROIs will be split into
`shift`	no. of bp between start positions of adjacent bins
`chr`	indicates whether naming contains chr prefix

generates a new BED file with (larger) ROIs split into smaller bins

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bed <- list.files(system.file("extdata", package = "panelcn.mops"),
                    pattern = ".bed$", full.names = TRUE)
splitROIs(bed, "newBed.bed")