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

[Francesco Napolitano]

Hi,

thanks for the suggestion. The point is that I have multiple assays, each
of which is made of statistic-p-value pairs. Within each assay, the two
matrices have of course same rows and columns, but different assays will
have different rows (same columns). So I should flatten everything and
model both the matrices for the same experiment and the matrices for
different experiments all as different assays of a MultiAssay, which sounds
rather stretched, or doesn't it?

Francesco

Il 23/10/2017 22:50, Vincent Carey ha scritto:

no answers yet?  would it work to put your matrices as separate assays in a
SummarizedExperiment?
as long as they are conformant in dimensions and dimnames I think that
would work.  That
SummarizedExperiment would then work well in an MAE.

On Mon, Oct 23, 2017 at 1:00 PM, Francesco Napolitano <franapoli at gmail.com>
wrote:

> Hi,
>
> I'm trying to build a MultiAssayExperiment. However, in my case each
> assay should ideally include two matrices: one with a statistic and
> another one with the corresponding p-value. I'm currently managing
> each of them simply as a list of two matrices, but assay class expects
> table-like data. I must also be able to quickly extract entire rows or
> columns from each matrix.
>
> Is there a suitable way to model this into a MultiAssayExperiment?
>
> Thank you,
> Francesco
>
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