[Bioc-devel] follow up on subject: mapping between original and reduced ranges

Hervé Pagès hpages at fhcrc.org
Thu Jan 17 07:49:16 CET 2013

Hi Florian,

Starting with IRanges 1.17.25 / GenomicRanges 1.11.23, reduce()
supports the 'with.mapping' arg on IRanges, IRangesList, and GRanges
objects (but not on GRangesList yet, could be added though).

Make sure to check ?`inter-range-methods` for typical downstream
manipulations of the mapping returned by reduce() when called
with 'with.mapping=TRUE'.

Let me know if you find problems with this or have suggestions.


On 11/13/2012 05:44 PM, Hervé Pagès wrote:
> Hi Florian,
> This improvement to reduce() didn't make it in BioC 2.11. It has not
> been dropped from the agenda though: it's still on our list. Won't
> be before a couple of weeks though. Thanks for the reminder!
> H.
> On 11/09/2012 05:58 AM, Hahne, Florian wrote:
>> Hi Herve,
>> a while ago I was asking about the possibility to store the reverse
>> mapping in the resulting GRanges object after a reduce operation, and as
>> far as I remember you agreed to put this on the to-do list for 2.11. I
>> can't find any documentation about it in the man pages, and the code of
>> the GenomicRanges reduce method looks unchanged. Has this been dropped
>> from the agenda?
>> Thanks,
>> Florian

Hervé Pagès

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