[Bioc-devel] Modeling (statistic, p-value) pairs in MultiAssayExperiment

[Michael Lawrence]

Model results could be stored in another SE. The contrasts are treated as
samples, and stuff like p-values, effect sizes, etc as assays. Question is
whether those should just be tacked onto a MAE, or kept as separate
objects, or stored along with the MAE in a larger analysis-level workflow
object.

On Wed, Oct 25, 2017 at 8:57 AM, Kasper Daniel Hansen <
kasperdanielhansen at gmail.com> wrote:

> I think analysis of multiassay experiments often will consists of
> integration following assay-specific models. Not necessarily, but it will
> be a usecase. Organizing multiple model fits together could be useful, for
> downstream comparison / integration.
>
> Say you find DMRs and DE genes. Now you want to do something with them.
> Right now we have multiple objects floating around. Would it be useful to
> have a collector for this?
>
> Best,
> Kasper
>
> On Tue, Oct 24, 2017 at 6:30 PM, Levi Waldron <lwaldron.research at gmail.com
> >
> wrote:
>
> > On Mon, Oct 23, 2017 at 9:15 PM, Kasper Daniel Hansen <
> > kasperdanielhansen at gmail.com> wrote:
> >
> >> Are you discussing statistics of the same dimension as the data
> (unusual)
> >> or summary statistics? We should think about a MAE version of summary
> >> statistics, but that is not captured in current representation I would
> >> say.
> >>
> >
> > What do you have in mind Kasper? I assumed that summary statistics could
> > usually be kept in the rowData of a SummarizedExperiment.
> >
>
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