convert representation of phylogenetic tree as a moment L-matrix to Newick form
function converts a tree in moment format to Newick format.
The input can be an
a square $L$ matrix,
or an $L$ matrix in reduced upper-triangular (vector) form.
toNewick function sets its list output to class
which has $5$ components,
including the tree in Newick format.
L can be an
if L is not a
Character vector containing labels for tips. If null, labels default to "a"-"z" it at most 26; otherwise, 3-letter labels of the form "aaa", "aab",...
L-matrix object is a list with 5 components: "L" is the L-matrix in square form. "L.ut" is the L-matrix in upper-triangular form. "Newick" is the Newick representation of the tree.
"tip.label" is the character vector of tip labels. "tip.label.n" is the number of tips.
a Newick representation of the phylogenetic tree corresponding to the input
Kem Phillips <firstname.lastname@example.org>
K Phillips, Symbolic Computation of the Central Moments of the Multivariate Normal Distribution, Journal of Statistical Software, 2010.
J. Felsenstein, The Newick tree format, 1990, http://evolution.genetics.washington.edu/phylip/newicktree.html
P.W. Diaconis and S. Holmes, Matchings and Phylogenetic Trees, Proc. Natl. Acad. Sci., 1998, 95(25), 14600-14602
functions toMoment and toMatching
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