[Bioc-devel] Nature Genetics - Call for data analysis papers

2014-02-27 Thread Wolfgang Huber
Perhaps of interest to some: http://www.nature.com/ng/journal/v46/n3/full/ng.2914.html Community standards for data access, interoperability and metadata only make sense if data are creatively reused to further research. We are therefore inviting the submission of Analysis papers that reformat

Re: [Bioc-devel] GenomicRanges: Seqinfo indexing with non-existing key

2014-02-27 Thread Dan Du
Hi, To me it sounds like what I am expecting, from a R base point of view. x-1:5 names(x)-letters[1:5] i-'f' x[i] Best, Dan On Thu, 2014-02-27 at 13:49 +0100, Julian Gehring wrote: Hi, In the current bioc-stable and bioc-devel, a 'Seqinfo' object can be indexed successfully with any

Re: [Bioc-devel] GenomicRanges: Seqinfo indexing with non-existing key

2014-02-27 Thread Julian Gehring
Hi Dan, Subestting your vector returns an element with both value and name set to 'NA'. In contrast, subsetting the 'Seqinfo' object returns an element with 'seqname' set to the key - which can be easily misinterpreted.. Also, subsetting a GRanges (e.g. 'as(si, GRanges)') with a non-existing