[Bioc-devel] Listing package-specific methods

[Hervé Pagès]

Hi Mike,

IIUC you want to do something like

   setdiff(methods(class="DESeqDataSet"),
           methods(class="RangedSummarizedExperiment"))

Maybe this could be handled by methods() itself e.g. with
an extra argument that lets the user choose if s/he wants to see
all the methods (i.e. specific + inherited) or only the specific
ones?

H.

On 06/27/2016 09:39 AM, Michael Love wrote:
> hi,
>
> Following on a conversation from Bioc2016, I think it would be good to have
> a function available to Bioconductor users that helps in the following
> situation:
>
> I'm a user, trying out a new package 'foo', which defines the FooData
> class, that builds on top of SummarizedExperiment. The package author has
> defined a set of methods for the FooData class in the 'foo' package. From
> the R console, I want to see a list of these methods, but I don't want to
> look through the entire list of methods defined for SummarizedExperiment,
> Vector, and Annotated.
>
> I think such a function should live somewhere easily accessible for
> Bioconductor users. I worked out two implementations of this function which
> you can see here:
>
> http://rpubs.com/mikelove/pkgmethods
>
> 	[[alternative HTML version deleted]]
>
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-- 
Hervé Pagès

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