Re: [Bioc-devel] InteractionSet for structural variants

2019-05-17 Thread Aaron Lun
I would say that it depends on what operations you intend to perform on them. You can _store_ things any way you like, but the trick is to ensure that operations and manipulations on those things are consistent and meaningful. It is not obvious that there are meaningful common operations that

[Bioc-devel] InteractionSet for structural variants

2019-05-17 Thread Bernat Gel Moreno
Hi all, Is there any standard recommended container for genomic structural variants? I think InteractionSet would work fine for translocation and GRanges for inversions and copy number changes, but I don't know what would be the recommended way to store them all together using standard