Thanks to all for your fast answer, this list is amazing!
Graham's answer was perfectly satisfactory, once onnly that eliminated the
warning.
Thanks to all again.
Agus
2012/5/23 Graham Slater gsla...@ucla.edu
This doesn't indicate that they don't match - rather it's telling you that
there are no names associated with the tip data (as tp$temperature is just
a vector of numerical values) and so it is assuming that those values are
in the same order as the tip labels in the tree.
Assuming the taxon names are the rownames of your dataframe tp, try
fitContinuous(phy = tree, data = tp$temperature, model=BM,
data.names = rownames(tp)
that should work without a warning. If your tip data are in the same order
as the tip labels, the model output won't change. If they're not.
Graham
On May 23, 2012, at 1:16 PM, Agus Camacho wrote:
Dear all,
fitcontinuous is giving me a warning generally related to non
correspondence between tree tips and data. However name.check and the
tree
tips seems ok.
Anybody has a hint on this?
Thanks in advance.
Agus
name.check(tree, tp)[1] OK BMfit - fitContinuous(tree,
tp$temperature, model=BM)Warning: no tip labels, order assumed to be the
same as in the tree
Fitting BM model: tree
Phylogenetic tree with 11 tips and 10 internal nodes.
Tip labels:
C.leiolepis, C.nicterus, C.sinebrachiatus, S.catimbau, N.ablephara,
P.erythrocercus, ...
Node labels:
1, 2, 3, 4, 5, 6, ...
Rooted; includes branch lengths.
--
Agustín Camacho Guerrero.
Doutorando em Zoologia.
Laboratório de Herpetologia, Departamento de Zoologia, Instituto de
Biociências, USP.
Rua do Matão, trav. 14, nº 321, Cidade Universitária,
São Paulo - SP, CEP: 05508-090, Brasil.
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Graham Slater Ph. D.
Department of Ecology and Evolutionary Biology
University of California, Los Angeles
610 Charles E. Young Drive South
Los Angeles, CA 90095-1606
(424) 442-4348
gsla...@ucla.edu
www.eeb.ucla.edu/gslater
--
Agustín Camacho Guerrero.
Doutorando em Zoologia.
Laboratório de Herpetologia, Departamento de Zoologia, Instituto de
Biociências, USP.
Rua do Matão, trav. 14, nº 321, Cidade Universitária,
São Paulo - SP, CEP: 05508-090, Brasil.
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