Separating decision tree complexity from subcube partition complexity

The subcube partition model of computation is at least as powerful as decision trees but no separation between these models was known. We show that there exists a function whose deterministic subcube partition complexity is asymptotically smaller than its randomized decision tree complexity, resolving an open problem of Friedgut, Kahn, and Wigderson (2002). Our lower bound is based on the information-theoretic techniques first introduced to lower bound the randomized decision tree complexity of the recursive majority function. We also show that the public-coin partition bound, the best known lower bound method for randomized decision tree complexity subsuming other general techniques such as block sensitivity, approximate degree, randomized certificate complexity, and the classical adversary bound, also lower bounds randomized subcube partition complexity. This shows that all these lower bound techniques cannot prove optimal lower bounds for randomized decision tree complexity, which answers an open question of Jain and Klauck (2010) and Jain, Lee, and Vishnoi (2014).Comment: 16 pages, 1 figur

On the Parameterized Complexity of Computing Tree-Partitions

We study the parameterized complexity of computing the tree-partition-width, a graph parameter equivalent to treewidth on graphs of bounded maximum degree. On one hand, we can obtain approximations of the tree-partition-width efficiently: we show that there is an algorithm that, given an $n$-vertex graph $G$ and an integer $k$, constructs a tree-partition of width $O(k^7)$ for $G$ or reports that $G$ has tree-partition width more than $k$, in time $k^{O(1)}n^2$. We can improve on the approximation factor or the dependence on $n$ by sacrificing the dependence on $k$. On the other hand, we show the problem of computing tree-partition-width exactly is XALP-complete, which implies that it is $W[t]$-hard for all $t$. We deduce XALP-completeness of the problem of computing the domino treewidth. Finally, we adapt some known results on the parameter tree-partition-width and the topological minor relation, and use them to compare tree-partition-width to tree-cut width

On the parameterized complexity of computing tree-partitions

We study the parameterized complexity of computing the tree-partition-width, a graph parameter equivalent to treewidth on graphs of bounded maximum degree. On one hand, we can obtain approximations of the tree-partition-width efficiently: we show that there is an algorithm that, given an $n$-vertex graph $G$ and an integer $k$, constructs a tree-partition of width $O(k^7)$ for $G$ or reports that $G$ has tree-partition width more than $k$, in time $k^{O(1)}n^2$. We can improve on the approximation factor or the dependence on $n$ by sacrificing the dependence on $k$. On the other hand, we show the problem of computing tree-partition-width exactly is XALP-complete, which implies that it is $W[t]$-hard for all $t$. We deduce XALP-completeness of the problem of computing the domino treewidth. Finally, we adapt some known results on the parameter tree-partition-width and the topological minor relation, and use them to compare tree-partition-width to tree-cut width

Unique Perfect Phylogeny Characterizations via Uniquely Representable Chordal Graphs

The perfect phylogeny problem is a classic problem in computational biology, where we seek an unrooted phylogeny that is compatible with a set of qualitative characters. Such a tree exists precisely when an intersection graph associated with the character set, called the partition intersection graph, can be triangulated using a restricted set of fill edges. Semple and Steel used the partition intersection graph to characterize when a character set has a unique perfect phylogeny. Bordewich, Huber, and Semple showed how to use the partition intersection graph to find a maximum compatible set of characters. In this paper, we build on these results, characterizing when a unique perfect phylogeny exists for a subset of partial characters. Our characterization is stated in terms of minimal triangulations of the partition intersection graph that are uniquely representable, also known as ur-chordal graphs. Our characterization is motivated by the structure of ur-chordal graphs, and the fact that the block structure of minimal triangulations is mirrored in the graph that has been triangulated

Representing Partitions on Trees

In evolutionary biology, biologists often face the problem of constructing a phylogenetic tree on a set X of species from a multiset Π of partitions corresponding to various attributes of these species. One approach that is used to solve this problem is to try instead to associate a tree (or even a network) to the multiset ΣΠ consisting of all those bipartitions {A,X − A} with A a part of some partition in Π. The rational behind this approach is that a phylogenetic tree with leaf set X can be uniquely represented by the set of bipartitions of X induced by its edges. Motivated by these considerations, given a multiset Σ of bipartitions corresponding to a phylogenetic tree on X, in this paper we introduce and study the set P(Σ) consisting of those multisets of partitions Π of X with ΣΠ = Σ. More specifically, we characterize when P(Σ) is non-empty, and also identify some partitions in P(Σ) that are of maximum and minimum size. We also show that it is NP-complete to decide when P(Σ) is non-empty in case Σ is an arbitrary multiset of bipartitions of X. Ultimately, we hope that by gaining a better understanding of the mapping that takes an arbitrary partition system Π to the multiset ΣΠ, we will obtain new insights into the use of median networks and, more generally, split-networks to visualize sets of partitions

Two-Level Rectilinear Steiner Trees

Given a set $P$ of terminals in the plane and a partition of $P$ into $k$ subsets $P_1, ..., P_k$, a two-level rectilinear Steiner tree consists of a rectilinear Steiner tree $T_i$ connecting the terminals in each set $P_i$ ($i=1,...,k$) and a top-level tree $T_{top}$ connecting the trees $T_1, ..., T_k$. The goal is to minimize the total length of all trees. This problem arises naturally in the design of low-power physical implementations of parity functions on a computer chip. For bounded $k$ we present a polynomial time approximation scheme (PTAS) that is based on Arora's PTAS for rectilinear Steiner trees after lifting each partition into an extra dimension. For the general case we propose an algorithm that predetermines a connection point for each $T_i$ and $T_{top}$ ($i=1,...,k$). Then, we apply any approximation algorithm for minimum rectilinear Steiner trees in the plane to compute each $T_i$ and $T_{top}$ independently. This gives us a $2.37$-factor approximation with a running time of $\mathcal{O}(|P|\log|P|)$ suitable for fast practical computations. The approximation factor reduces to $1.63$ by applying Arora's approximation scheme in the plane