Added a new vignette to GenomicRanges that explains this stuff. On Mon, Sep 29, 2014 at 6:54 PM, Michael Lawrence <[email protected]> wrote:
> 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 < > [email protected]> 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 <[email protected]> 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 >> > >> > _______________________________________________ >> > [email protected] mailing list >> > https://stat.ethz.ch/mailman/listinfo/bioc-devel >> > >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> [email protected] mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> > > [[alternative HTML version deleted]] _______________________________________________ [email protected] mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
