Produce a new object in which the information about the target and
query genomes have been inverted. As a large number of GenomicBreaks
functions require GBreaks objects that were sorted with strand information
ignored, a sort option is provided to do that.
Arguments
- gb
A
GBreaksobject.- sort
Sort the returned object, ignoring strand.
Value
A new GBreaks object representing the input's query ranges,
with the input's target ranges in the query slot. The strand information
is unchanged.
See also
Other modifier functions:
bridgeRegions(),
coalesce_contigs(),
flipInversions(),
forceSeqLengths(),
guessSeqLengths(),
keepLongestPair(),
matchPairs(),
mergeSeqLevels(),
removeDoubleInversions(),
removeInversions(),
removeTranslocations(),
reverse(),
splitSeqLevel()
Examples
swap(exampleDeletion)
#> GBreaks object with 3 ranges and 1 metadata column:
#> seqnames ranges strand | query
#> <Rle> <IRanges> <Rle> | <GRanges>
#> [1] chrB 100-200 + | chrA:100-200
#> [2] chrC 401-500 + | chrA:201-300
#> [3] chrB 201-300 + | chrA:301-400
#> -------
#> seqinfo: 2 sequences from an unspecified genome
swap(exampleDeletion, sort = TRUE)
#> GBreaks object with 3 ranges and 1 metadata column:
#> seqnames ranges strand | query
#> <Rle> <IRanges> <Rle> | <GRanges>
#> [1] chrB 100-200 + | chrA:100-200
#> [2] chrB 201-300 + | chrA:301-400
#> [3] chrC 401-500 + | chrA:201-300
#> -------
#> seqinfo: 2 sequences from an unspecified genome