[Bioc-devel] annoSet?
Usually, I represent this with a long-form GRanges with a sample column. But there is no formal notion of sample, and sample-level data needs to be "denormalized". I think you are asking for something similar to GenomicFileViews, except for GRanges instead of files. An implementation might be a GenomicRangesList, except the Seqinfo is coordinated across all elements. The mcols() on the GRL would hold the phenotype data. On Wed, Aug 12, 2015 at 2:01 PM, Vincent Carey <stvjc at channing.harvard.edu> wrote:
It seems to me we may need a class to manage related annotation
structures. For example, the chromImpute segmentations of the genome
defined for various cell types. I would like to be able to take a region
of the genome (say a SNP) and ask how the state varies across cell types.
AnnotationHub will provide access to cell-type specific GRanges but there
is no container that I can think of that would coordinate these as
analogous
to different "samples".
Am I missing something?
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