BTW we should probably address the inconsistencies between the GRangesList/SimpleGenomicRangesList way used in the GenomicRanges package and the CompressedWhateverList/SimpleWhateverList way that is used in the IRanges package. That is, have the GRangesList() accept the 'compress' arg (TRUE by default) and return either a CompressedGRangesList or a SimpleGRangesList object. H.
On 10/22/2013 06:32 AM, Julian Gehring wrote:
Hi Elsa, You can avoid this problem by using a 'GenomicRangesList' instead of a 'GRangesList'. Best wishes Julian
Second, I have to say that I just made a commit in the released version, bumped from 1.0.0 to 1.0.1 in order to fix an important bug. I was storing GRanges object into a GRangesList(), but in that case the number of metadata columns of each GRanges object has to be the same, which is not my case. So I changed to a regular list() storing GRange objects.
_______________________________________________ Bioc-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
Herv? Pag?s 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 fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319