Dear R-helpers and Klaus,

I would like to know how to write out a tree file with bootstrap from
phangorn package. That tree file could be in newick format or others.

I am new for phylogenetic operation in R. Could you please give me any
directions on that? Thanks in advance.

Best wishes,
Jian-Feng,

########
# as a example
# I accomplished 1000 bootstrap simulation on a fit object (a maximum
likelihood tree object)
# how could I output a tree in newick format for tuning outside R?

bs <- bootstrap.pml(fit, bs=1000, optNni=T, optInv=T, multicore=T)

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