[Phylobase-devl] stalled ...

Ben Bolker bolker at ufl.edu
Thu Jan 15 22:39:04 CET 2009

Hilmar Lapp wrote:
> On Jan 15, 2009, at 2:54 PM, Steven Kembel wrote:
>> I think a single @metadata slot should be enough, if it's a list we
>> can put whatever else we want in there in the future. An annotation
>> slot is tricky, if annotations are going to be attached to nodes/edges
>> they can be phylo4d data, but if they apply to the whole tree they can
>> be metadata, so just a @metadata slot may be enough?
> Would you propose to do the same for none and edge metadata? (Hmm -  
> but there are no node and edge objects, right? So would these need to  
> be indexed in an array of lists?)
> 	-hilmar

  Annotation for nodes/edges won't work as phylo4d data (at present)
if it is in a form that can't be squeezed in as a column of a data
frame.  All the metadata would have to be hiding in the @metadata list.
Within that list, though, we can be as creative as we want because S4
doesn't check anything other than the type of the slot by default.


Ben Bolker
Associate professor, Biology Dep't, Univ. of Florida
bolker at ufl.edu / www.zoology.ufl.edu/bolker
GPG key: www.zoology.ufl.edu/bolker/benbolker-publickey.asc

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