[Bioc-devel] 'semantically rich' subsetting of SummarizedExperiments
stvjc at channing.harvard.edu
Mon Sep 22 16:40:16 CEST 2014
On Mon, Sep 22, 2014 at 10:17 AM, Cook, Malcolm <MEC at stowers.org> wrote:
> >shows some modifications to [ that allow subsetting of SE by
> >gene or pathway name
> Without reading the code, do you intend that SE[i,j] will , if i is
> provided as vector of string, will subset those rows where the name of the
> GRanges == i?
By 'the GRanges' do you mean rowData(SE)?
My code breaks that capability -- e.g., ALLse["982_at",] now fails.
But I think that could be handled if desired.
> >it may be premature to work at the [ level. Kasper suggested defining
> >a suite of subsetBy operations that would accomplish this
> Reminder of a little background to where we are now, with warnings of
> lurking dragons:
Thanks for the reminder. I understand that training dragons can cause
tears to be shed.
> >i think we could get something along these lines into the release without
> >too much more work. votes?
> Abstaining for now.
> Thanks - the topic is dear to me too.
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