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.
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Hervé Pagès
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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P.O. Box 19024
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