Network structures and models have been widely adopted, e.g., for Internet of Things, wireless sensor networks, smart grids, transportation networks, communication networks, social networks, and computer grid systems. Network reliability is an effective and popular technique to estimate the probability that the network is still functioning. Networks composed of binary-state (e.g., working or failed) components (arcs and/or nodes) are called binary-state networks. The binary-state network is the fundamental type of network; thus, there is always a need for a more efficient algorithm to calculate the network reliability. Thus, a novel binary-addition tree (BAT) algorithm that employs binary addition for finding all the possible state vectors and the path-based layered-search algorithm for filtering out all the connected vectors is proposed for calculating the binary-state network reliability. According to the time complexity and numerical examples, the efficiency of the proposed BAT is higher than those of traditional algorithms for solving the binary-state network reliability problem.
We start with a review of the pervasiveness of the nearest neighbor search problem and techniques used to solve it along with some experimental results. In the second chapter, we show reductions between two different classes of geo- metric proximity problems: the nearest neighbor problems to solve the Euclidean minimum spanning tree problem and the farthest neighbor problems to solve the k-centers problem. In the third chapter, we unify spatial partitioning trees un- der one framework the meta-tree. Finally, we propose a dual tree algorithm for Bichromatic Closest Pair and measure the complexi…
We present a new uniform random sampler for binary trees with $n$ internal nodes consuming $2n + Θ(\log(n)^2)$ random bits on average. This makes it quasi-optimal and out-performs the classical Remy algorithm. We also present a sampler for unary-binary trees with $n$ nodes taking $Θ(n)$ random bits on average. Both are the first linear-time algorithms to be optimal up to a constant.
Algorithms for dynamically maintaining minimum spanning trees (MSTs) have received much attention in both the parallel and sequential settings. While previous work has given optimal algorithms for dense graphs, all existing parallel batch-dynamic algorithms perform polynomial work per update in the worst case for sparse graphs. In this paper, we present the first work-efficient parallel batch-dynamic algorithm for incremental MST, which can insert $\ell$ edges in $O(\ell \log(1+n/\ell))$ work in expectation and $O(\text{polylog}(n))$ span w.h.p. The key ingredient of our algorithm is an algori…
This paper describes the shortest path problem in weighted graphs and examines the differences in efficiency that occur when using Dijkstra's algorithm with a Fibonacci heap, binary heap, and self-balancing binary tree. Using C++ implementations of these algorithm variants, we find that the fastest method is not always the one that has the lowest asymptotic complexity. Reasons for this are discussed and backed with empirical evidence.
Various networks are broadly and deeply applied in real-life applications. Reliability is the most important index for measuring the performance of all network types. Among the various algorithms, only implicit enumeration algorithms, such as depth-first-search, breadth-search-first, universal generating function methodology, binary-decision diagram, and binary-addition-tree algorithm (BAT), can be used to calculate the exact network reliability. However, implicit enumeration algorithms can only be used to solve small-scale network reliability problems. The BAT was recently proposed as a simpl…
Three standard subtree transfer operations for binary trees, used in particular for phylogenetic trees, are: tree bisection and reconnection ($TBR$), subtree prune and regraft ($SPR$) and rooted subtree prune and regraft ($rSPR$). For a pair of leaf-labelled binary trees with $n$ leaves, the maximum number of such moves required to transform one into the other is $n-Θ(\sqrt{n})$, extending a result of Ding, Grunewald and Humphries. We show that if the pair is chosen uniformly at random, then the expected number of moves required to transfer one into the other is $n-Θ(n^{2/3})$. These results m…
The dynamic trees problem is to maintain a forest subject to edge insertions and deletions while facilitating queries such as connectivity, path weights, and subtree weights. Dynamic trees are a fundamental building block of a large number of graph algorithms. Although traditionally studied in the single-update setting, dynamic algorithms capable of supporting batches of updates are increasingly relevant today due to the emergence of rapidly evolving dynamic datasets. Since processing updates on a single processor is often unrealistic for large batches of updates, designing parallel batch-dyna…
Any Boolean function corresponds with a complete full binary decision tree. This tree can in turn be represented in a maximally compact form as a direct acyclic graph where common subtrees are factored and shared, keeping only one copy of each unique subtree. This yields the celebrated and widely used structure called reduced ordered binary decision diagram (ROBDD). We propose to revisit the classical compaction process to give a new way of enumerating ROBDDs of a given size without considering fully expanded trees and the compaction step. Our method also provides an unranking procedure for th…
We present the zipper tree, an $O(\log \log n)$-competitive online binary search tree that performs each access in $O(\log n)$ worst-case time. This shows that for binary search trees, optimal worst-case access time and near-optimal amortized access time can be guaranteed simultaneously.
Best match graphs (BMG) are a key intermediate in graph-based orthology detection and contain a large amount of information on the gene tree. We provide a near-cubic algorithm to determine whether a BMG is binary-explainable, i.e., whether it can be explained by a fully resolved gene tree and, if so, to construct such a tree. Moreover, we show that all such binary trees are refinements of the unique binary-resolvable tree (BRT), which in general is a substantial refinement of the also unique least resolved tree of a BMG. Finally, we show that the problem of editing an arbitrary vertex-colored …
In this paper, we provide new insights and analysis for the two elementary tree-based data structures - the AVL tree and binary heap. We presented two simple properties that gives a more direct way of relating the size of an AVL tree and the Fibonacci recurrence to establish the AVL tree's logarithmic height. We then give a potential function-based analysis of the bottom-up heap construction to get a simpler and tight bound for its worst-case running-time.
We suggest a new non-recursive algorithm for constructing a binary search tree given an array of numbers. The algorithm has $O(N)$ time and $O(1)$ memory complexity if the given array of $N$ numbers is sorted. The resulting tree is of minimal height and can be transformed to a complete binary search tree (retaining minimal height) with $O(\log N)$ time and $O(1)$ memory. The algorithm allows simple and effective parallelization.
Current real-life applications of various networks such as utility (gas, water, electric, 4G/5G) networks, the Internet of Things, social networks, and supply chains. Reliability is one of the most popular tools for evaluating network performance. The fundamental structure of these networks is a binary state network. Distinctive methods have been proposed to efficiently assess binary-state network reliability. A new algorithm called QB-II (quick binary-addition tree algorithm II) is proposed to improve the efficiency of quick BAT, which is based on BAT and outperforms many algorithms. The prop…
In this paper we study binary trees with choosable edge lengths, in particular rooted binary trees with the property that the two edges leading from every non-leaf to its two children are assigned integral lengths $l_1$ and $l_2$ with $l_1+l_2 =k$ for a constant $k\in\mathbb{N}$. The depth of a leaf is the total length of the edges of the unique root-leaf-path. We present a generalization of the Huffman Coding that can decide in polynomial time if for given values $d_1,...,d_n\in\mathbb{N}_{\geq 0}$ there exists a rooted binary tree with choosable edge lengths with $n$ leaves having depths at …
Current network applications, such as utility networks (gas, water, electricity, and 4G/5G), the Internet of Things (IoT), social networks, and supply chains, are all based on binary state networks. Reliability is one of the most commonly used tools for evaluating network performance, and the minimal path (MP) is a basic algorithm for calculating reliability. However, almost all existing algorithms assume that all undirected arcs are homogeneous; that is, the probability of an arc from nodes a to b is equal to that from nodes b to a. Therefore, based on MPs, the binary-addition-tree algorithm …
Between the leaves and the nodes of a complete binary tree, a separate parent-child-sister hierarchy is employed independent of the parent-child-sister hierarchy used for the rest of the tree. Two different versions of such a local hierarchy are introduced. The result of the first proposed hierarchy is a faster and smaller footprint, while the second one provides the size variation functionality without a significant computational overhead. This novel approach brings considerable memory gains and performance boosts to the complete binary tree based algorithms.
Suppose we have n keys, n access probabilities for the keys, and n+1 access probabilities for the gaps between the keys. Let h_min(n) be the minimal height of a binary search tree for n keys. We consider the problem to construct an optimal binary search tree with near minimal height, i.e.\ with height h <= h_min(n) + Delta for some fixed Delta. It is shown, that for any fixed Delta optimal binary search trees with near minimal height can be constructed in time O(n^2). This is as fast as in the unrestricted case. So far, the best known algorithms for the construction of height-restricted optima…
random_tree() is a linear time and space C++ implementation able to create trees of up to a billion nodes for genetic programming and genetic improvement experiments. A 3.60GHz CPU can generate more than 18 million random nodes for GP program trees per second.
It is a known fact that, given two rooted binary phylogenetic trees, the concept of maximum acyclic agreement forests is sufficient to compute hybridization networks with minimum hybridization number. In this work, we demonstrate by first presenting an algorithm and then showing its correctness, that this concept is also sufficient in the case of multiple input trees. More precisely, we show that for computing minimum hybridization networks for multiple rooted binary phylogenetic trees on the same set of taxa it suffices to take only maximum acyclic agreement forests into account. Moreover, th…
Binary jumbled pattern matching asks to preprocess a binary string $S$ in order to answer queries $(i,j)$ which ask for a substring of $S$ that is of length $i$ and has exactly $j$ 1-bits. This problem naturally generalizes to vertex-labeled trees and graphs by replacing "substring" with "connected subgraph". In this paper, we give an $O(n^2 / \log^2 n)$-time solution for trees, matching the currently best bound for (the simpler problem of) strings. We also give an $\Oh{g^{2 / 3} n^{4 / 3}/(\log n)^{4/3}}$-time solution for strings that are compressed by a grammar of size $g$. This solution im…
Assuming Zipf's Law to be accurate, we show that existing techniques for partially optimizing binary trees produce results that are approximately 10% worse than true optimal. We present a new approximate optimization technique that runs in O(n log n) time and produces trees approximately 1% worse than optimal. The running time is comparable to that of the Garsia-Wachs algorithm but the technique can be applied to the more useful case where the node being searched for is expected to be contained in the tree as opposed to outside of it.
Efficient implementations of sets and maps (dictionaries) are important in computer science, and balanced binary search trees are the basis of the best practical implementations. Pedagogically, however, they are often quite complicated, especially with respect to deletion. I present complete code (with justification and analysis not previously available in the literature) for a purely-functional implementation based on AA trees, which is the simplest treatment of the subject of which I am aware.
Tree rotations (left and right) are basic local deformations allowing to transform between two unlabeled binary trees of the same size. Hence, there is a natural problem of practically finding such transformation path with low number of rotations, the optimal minimal number is called the rotation distance. Such distance could be used for instance to quantify similarity between two trees for various machine learning problems, for example to compare hierarchical clusterings or arbitrarily chosen spanning trees of two graphs, like in SMILES notation popular for describing chemical molecules. Ther…
A static binary search tree where every search starts from where the previous one ends (lazy finger) is considered. Such a search method is more powerful than that of the classic optimal static trees, where every search starts from the root (root finger), and less powerful than when rotations are allowed---where finding the best rotation based tree is the topic of the dynamic optimality conjecture of Sleator and Tarjan. The runtime of the classic root-finger tree can be expressed in terms of the entropy of the distribution of the searches, but we show that this is not the case for the optimal …
We present a general method for de-amortizing essentially any Binary Search Tree (BST) algorithm. In particular, by transforming Splay Trees, our method produces a BST that has the same asymptotic cost as Splay Trees on any access sequence while performing each search in O(log n) worst case time. By transforming Multi-Splay Trees, we obtain a BST that is O(log log n) competitive, satisfies the scanning theorem, the static optimality theorem, the static finger theorem, the working set theorem, and performs each search in O(log n) worst case time. Moreover, we prove that if there is a dynamicall…
