Get gaps in GRanges

Get gaps in GRanges

Usage

getGRgaps(gr, strandSpecific = TRUE, verbose = FALSE, ...)

Arguments

gr

GRanges object

strandSpecific

logical, default TRUE, whether to determine gaps within strand.

verbose

logical indicating whether to print verbose output.

...

additional arguments are passed to getGRLgaps().

Details

This function returns the gaps between GRanges regions, calculated for each chromosome (using GenomicRanges::seqnames(gr)), and when strandSpecific=TRUE it determines gaps in stranded fashion.

See also

Other GenomicRanges functions: addGRLgaps(), addGRgaps(), annotateGRLfromGRL(), annotateGRfromGR(), assignGRLexonNames(), closestExonToJunctions(), findOverlapsGRL(), flattenExonsBy(), getGRLgaps(), jam_isDisjoint(), sortGRL(), spliceGR2junctionDF()