Related papers: Treelike quintet systems
A phylogenetic tree shows the evolutionary relationships among species. Internal nodes of the tree represent speciation events and leaf nodes correspond to species. A goal of phylogenetics is to combine such trees into larger trees, called…
We define an algorithm k which takes a connected graph G on a totally ordered vertex set and returns an increasing tree R (which is not necessarily a subtree of G). We characterize the set of graphs G such that k(G)=R. Because this set has…
Consider the nearest neighbor graph for the integer lattice Z^d in d dimensions. For a large finite piece of it, consider choosing a spanning tree for that piece uniformly among all possible subgraphs that are spanning trees. As the piece…
Pairwise ordered tree alignment are combinatorial objects that appear in RNA secondary structure comparison. However, the usual representation of tree alignments as supertrees is ambiguous, i.e. two distinct supertrees may induce identical…
Three intersection theorems are proved. First, we determine the size of the largest set system, where the system of the pairwise unions is l-intersecting. Then we investigate set systems where the union of any s sets intersect the union of…
We investigate the connections between tree amalgamations and quasi-isometries. In particular, we prove that the quasi-isometry type of multi-ended accessible quasi-transitive connected locally finite graphs is determined by the…
Quasi-trees generalize trees in that the unique "path" between two nodes may be infinite and have any countable order type. They are used to define the rank-width of a countable graph in such a way that it is equal to the least upper-bound…
A tree-based network on a set $X$ of $n$ leaves is said to be universal if any rooted binary phylogenetic tree on $X$ can be its base tree. Francis and Steel showed that there is a universal tree-based network on $X$ in the case of $n=3$,…
In phylogenetics, a central problem is to infer the evolutionary relationships between a set of species $X$; these relationships are often depicted via a phylogenetic tree -- a tree having its leaves univocally labeled by elements of $X$…
Transfinite set theory including the axiom of choice supplies the following basic theorems: (1) Mappings between infinite sets can always be completed, such that at least one of the sets is exhausted. (2) The real numbers can be well…
The reconstruction of a central tendency `species tree' from a large number of conflicting gene trees is a central problem in systematic biology. Moreover, it becomes particularly problematic when taxon coverage is patchy, so that not all…
We characterize the ``best'' model geometries for the class of virtually free groups, and we show that there is a countable infinity of distinct ``best'' model geometries in an appropriate sense--these are the maximally symmetric trees. The…
The theory of complex trees is introduced as a new approach to study a broad class of self-similar sets. Systems of equations encoded by complex trees tip-to-tip equivalence relations are used to obtain one-parameter families of connected…
Generalized trees, we call them O-trees, are defined as hierarchical partial orders, i.e., such that the elements larger than any one are linearly ordered. Quasi-trees are, roughly speaking, undirected O-trees. For O-trees and quasi-trees,…
We study varieties that contain unranked tree languages over all alphabets. Trees are labeled with symbols from two alphabets, an unranked operator alphabet and an alphabet used for leaves only. Syntactic algebras of unranked tree languages…
We present in this paper a first-order axiomatization of an extended theory $T$ of finite or infinite trees, built on a signature containing an infinite set of function symbols and a relation $\fini(t)$ which enables to distinguish between…
We determine upper and lower bounds for the number of maximum matchings (i.e., matchings of maximum cardinality) $m(T)$ of a tree $T$ of given order. While the trees that attain the lower bound are easily characterised, the trees with…
We study a notion of potential isomorphism, where two structures are said to be potentially isomorphic if they are isomorphic in some generic extension that preserves stationary sets and does not add new sets of cardinality less than the…
Let $\FN$ be a free group of finite rank $N \geq 2$, and let $T$ be an $\R$-tree with a very small, minimal action of $\FN$ with dense orbits. For any basis $\CA$ of $\FN$ there exists a {\em heart} $K_{\CA} \subset \bar T$ (= the metric…
Let M be ternary, homogeneous and simple. We prove that if M is finitely constrained, then it is supersimple with finite SU-rank and dependence is $k$-trivial for some $k < \omega$ and for finite sets of real elements. Now suppose that, in…