[Bioc-devel] GenomicFiles: some random issues

[Michael Lawrence]

I admit negligence in not document this. But if you look at VRanges, you
can see how we set a method for "extraColumnSlotNames" returns a character
vector of slot names to tell GenomicRanges which slots should be treated as
columns (there is also an example in the previous email). These are then
handled automatically in subsetting, showing, validation, etc. This has
also been used in the exonfindR package (just submitted to Bioc). I'll put
documenting that feature on the TODO list.

Michael

On Mon, Sep 29, 2014 at 5:08 PM, Kasper Daniel Hansen <
kasperdanielhansen at gmail.com> wrote:

> Based on Chuck's email I realize I did not understand Michael's answer at
> all.
>
> On Mon, Sep 29, 2014 at 7:44 PM, Charles Berry <ccberry at ucsd.edu> wrote:
>
> > Michael Lawrence <lawrence.michael <at> gene.com> writes:
> >
> > >
> > > This comes down to an inheritance vs. composition decision, but I hope
> > > everyone is aware of the extraColumnSlots mechanism in GRanges that
> makes
> > > it easy to add additional "column-shaped" slots to a subclass of
> GRanges.
> >
> > Where is it documented, please?
> >
> > Chuck
> >
> > _______________________________________________
> > Bioc-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >
>
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