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.
Thanks,
H.
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
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024
E-mail: hpa...@fhcrc.org
Phone: (206) 667-5791
Fax: (206) 667-1319
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