[Phylobase-devl] Planning the next release of phylobase

[Thibaut Jombart]

Hi again,

>>>      
>>>
>>I mean that if I have a phylo4d object name foo, I should be able to  
>>do something like foo[-c('taxa1', 'taxa2'), ].  This should probably  
>>have a bit of discussion about how exactly it should work.  I would  
>>think that using the data frame sub-setting as a models is a good start.
>>    
>>
>I think both "foo[tips]" and "foo[tips,traits]" could be used. But as a 
>start, I would prefer "foo[tips]" as this is the less easy to do 
>manually. Plus, I don't know if both can be implemented, but I'll try 
>this afternoon if I have time.
>  
>
And I had time this afternoon, so... but this is still open for 
discussion of course.
I implemented a "[" operator for phylo4 and phylo4d objects. I put 
documentation in the "subset" manpage.
As it is, we can use "foo[tips]" with phylo4 and "foo[tips]" or  
"foo[tips,traits]" with phylo4d objects.
Allowed indices are the same as for a vector or a data.frame (integers, 
characters, logical). I did a few tests which seemed ok, but more would 
be useful for sure.

Cheers,

Thibaut.

-- 
######################################
Thibaut JOMBART
CNRS UMR 5558 - Laboratoire de Biométrie et Biologie Evolutive
Universite Lyon 1
43 bd du 11 novembre 1918
69622 Villeurbanne Cedex
Tél. : 04.72.43.29.35
Fax : 04.72.43.13.88
jombart at biomserv.univ-lyon1.fr
http://lbbe.univ-lyon1.fr/-Jombart-Thibaut-.html?lang=en
http://pbil.univ-lyon1.fr/software/adegenet/