[Bioc-devel] Lack of Genomic RleList
Kasper Daniel Hansen
kasperdanielhansen at gmail.com
Tue Mar 29 21:17:05 CEST 2016
Thanks for the pointer, I'll experiment and update my materials.
On Tue, Mar 29, 2016 at 2:43 PM, Hervé Pagès <hpages at fredhutch.org> wrote:
> Hi Dario,
> On 03/16/2016 04:00 AM, Dario Strbenac wrote:
>> I have a use case for which I notice other users have already asked about
>> I'm hoping that, by mentioning it again, it could be included in the future
>> plans for GenomicRanges. It would be nice to avoid making loops for
>> chromosomes and strands, which improves readability.
> Janet was asking about subsetting a RleList using a GRanges object.
> I added this more than 2 years ago and it's documented (see last example
> in ?GRanges).
> Kasper's section "Rles and GRanges" could benefit from an update showing
> how to subset 'rl' by 'grView' instead of trying to create views on it.
> Creating views on a RleList object is not supported yet but could easily
> be done in the same way that I've done it for views on a BSgenome
> object (requested by Kasper 16 months ago):
>> Dario Strbenac
>> PhD Student
>> University of Sydney
>> Camperdown NSW 2050
>> Bioc-devel at r-project.org mailing list
> 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: hpages at fredhutch.org
> Phone: (206) 667-5791
> Fax: (206) 667-1319
> Bioc-devel at r-project.org mailing list
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