[Bioc-devel] information about sequencing experiment
Martin Morgan
mtmorgan at fhcrc.org
Sun Feb 3 18:32:35 CET 2013
On 02/03/2013 06:37 AM, Mike Love wrote:
> hi,
>
> Does/should there exist a class similar to MIAME for sequencing data, e.g. slots
> concerning the library preparation, alignment, etc.?
>
> This could then be suggested as something to include in the exptData SimpleList
> of SummarizedExperiment.
As it is one could certainly
> se = SummarizedExperiment()
> exptData(se) = list(MIAME())
If we want to go down this route then I think the right strategy would be to
make the exptData slot more strict. But what would the MIAME-like container look
like? The basics are probably shared, but what else?
> slotNames("MIAME")
[1] "name" "lab" "contact"
[4] "title" "abstract" "url"
[7] "pubMedIds" "samples" "hybridizations"
[10] "normControls" "preprocessing" "other"
[13] ".__classVersion__"
Martin
>
> best,
>
> Mike
>
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