Show translocations and their flanking blocks.

Show translocations and their flanking blocks.

Usage

showTranslocations(gb, rename = TRUE)

Arguments

gb

A GBreaks object processed with flagTranslocations.

rename

Replace range names by their numeric order before subsetting.

Value

Returns the GBreaks object in which all ranges that are not part of a translocation triplet have been discarded. If the object was missing the tra metadata column, return the object after discarding all of its ranges.

See also

Other Translocation functions: filterTranslocations(), flagTranslocations()

Examples

showTranslocations(flagTranslocations(exampleTranslocation))
#> GBreaks object with 3 ranges and 2 metadata columns:
#>     seqnames    ranges strand |        query   tra
#>        <Rle> <IRanges>  <Rle> |    <GRanges> <Rle>
#>   1     chrA   100-200      + | chrB:100-200  TRUE
#>   2     chrA   201-300      + | chrC:201-300 FALSE
#>   3     chrA   301-400      + | chrB:301-400 FALSE
#>   -------
#>   seqinfo: 1 sequence from an unspecified genome