DEFUNCT! Use mapToTranscripts from the
GenomicFeatures package or
mapToAlignments from the
GenomicAlignments package instead. The mapCoords generic converts a set of ranges to the equivalent
ranges on another sequence through some sort of alignment between
sequences. The output is an object of the same class as from
and in general will contain the mapped ranges with the matching data
as metadata. Matching data are the result of calling findOverlaps
with type = "within". This operation matches each input range to a
destination sequence (useful when the alignment is one/many to many).
The pmapCoords function is simpler: it treats the two inputs as
parallel vectors, maps each input range via the corresponding alignment,
and returns the mapped ranges. There is one result per input element,
instead of the many-to-many result from mapCoords.