Message-ID: <CAB6GOe6JzzOM5-TOh=rendSjJAP+bixV64gcGPZpt_VhuBLBHw@mail.gmail.com>
Date: 2015-10-15T02:39:28Z
From: Peter Hickey
Subject: [Bioc-devel] A method for combining SummarizedExperiment objects
In-Reply-To: <CAB6GOe6U5CmV5d8Bvs=HALX4ihK5+ZvNRpy0STca4c8hya0CVA@mail.gmail.com>
Sorry, the URL may have been mangled. It's
https://gist.github.com/PeteHaitch/8993b096cfa7ccd08c13
<https://gist.github.com/PeteHaitch/8993b096cfa7ccd08c13.>
On Thu, 15 Oct 2015 at 12:52 Peter Hickey <peter.hickey at gmail.com> wrote:
> I often find myself with multiple `SE` objects (I'm using `SE` as a
> shorthand for the `SummarizedExperiment0` and `RangedSummarizedExeriment`
> classes), each with different samples but possibly non-overlapping
> features/ranges. Currently, it is difficult to combine these objects;
> `rbind()` can only combine objects with the same samples but different
> features/ranges and `cbind()` can only combine objects with the same
> features/ranges but different samples. I think it would be useful to have a
> "combine" method for `SE` objects that handles the situation where each
> object has different samples but with possibly non-overlapping
> features/ranges.
>
> I've written a first pass at a method to do this at
> https://gist.github.com/PeteHaitch/8993b096cfa7ccd08c13.
> Is this a method other people find themselves in need of and, if so, might
> we add something like this to the SummarizedExperiment package? As noted in
> the gist, there's a few things I'd like to address to make it more robust
> and complete (probably some optimisations too).
>
> Cheers,
> Pete
>
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