[BioC] Can gene-set data be a data frame for a package in bioconductor

Martin Morgan mtmorgan at fhcrc.org
Mon Oct 11 23:03:56 CEST 2010

On 10/11/2010 01:10 PM, lan gao wrote:
> Dear bioconductor experts,
> I am developing a package to submit to bioconductor. Right now, a gene-set
> sample data is saved as a data frame. Each row contains a probe set
> and its corresponding gene-set name ( mutiple probe -set may map to a
> gene-set name) .
> Is this type of data format OK to be submitted to bioconductor? Or I have to
> make it to GeneCollectionSet class? ( If so, I have to change a lot of my R
> functions).

Lani -- Packages should use established S4 classes where available, so
yes, you should GSEABase::GeneSetCollection. This question is
appropriate for the Bioc-devel mailing list.


> Your resonse is highly appreciated!
> Lani
> 	[[alternative HTML version deleted]]
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