map and pmap are defunct. Use mapCoords
and pmapCoords instead.A method for translating a set of input ranges through a GAlignments object. Returns a GRangesMapping object.
NOTE: The map generic function is defined and
documented in the IRanges package.
A method for translating a set of input ranges through a
GRangesList object is defined and documented
in the GenomicRanges package.
"map"(from, to)GenomicRangesfrom and the
sequences in the result.Hits instance and GRanges instance.
to is taken to represent the
alignment of a (read) sequence. The CIGAR string is used to
translate the input ranges to be relative to the read start. This
is useful, for example, when determining the cycle (read position)
at which a particular genomic mismatch occurs.
mapCoords and pmapCoords methods.