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We study the computation of the diameter and radius under the rectilinear link distance within a rectilinear polygonal domain of n vertices and h holes. We introduce a graph of oriented distances to encode the distance between pairs of points of the domain. This helps us transform the problem so that we can search through the candidates more efficiently. Our algorithm computes both the diameter and the radius in O ( min ⁡ ( n ω , n 2 + n h log ⁡ h + χ 2 ) ) time, where ω 2.373 denotes the matrix multiplication exponent and χ ∈ Ω ( n ) ∩ O ( n 2 ) is the number of edges of the graph of oriented distances. We also provide an alternative algorithm for computing the diameter that runs in O ( n 2 log ⁡ n ) time.

The $k$-Colouring problem is to decide if the vertices of a graph can be coloured with at most $k$ colours for a fixed integer $k$ such that no two adjacent vertices are coloured alike. If each vertex u must be assigned a colour from a prescribed list $L(u) \subseteq \{1,\cdots, k\}$, then we obtain the List $k$-Colouring problem. A graph $G$ is $H$-free if $G$ does not contain $H$ as an induced subgraph. We continue an extensive study into the complexity of these two problems for $H$-free graphs. The graph $P_r+P_s$ is the disjoint union of the $r$-vertex path $P_r$ and the $s$-vertex path $P_s$. We prove that List $3$-Colouring is polynomial-time solvable for $(P_2+P_5)$-free graphs and for $(P_3+P_4)$-free graphs. Combining our results with known results yields complete complexity classifications of $3$-Colouring and List $3$-Colouring on $H$-free graphs for all graphs $H$ up to seven vertices., 20 pages, 6 figures. An extended abstract of this paper appeared in the proceedings of ISAAC 2018

Payment networks, also known as channels, are a most promising solution to the throughput problem of cryptocurrencies. In this paper we study the design of capital-efficient payment networks, offline as well as online variants. We want to know how to compute an efficient payment network topology, how capital should be assigned to the individual edges, and how to decide which transactions to accept. Towards this end, we present a flurry of interesting results, basic but generally applicable insights on the one hand, and hardness results and approximation algorithms on the other hand., Leibniz International Proceedings in Informatics (LIPIcs), 123, ISSN:1868-8969, 29th International Symposium on Algorithms and Computation (ISAAC 2018), ISBN:978-3-95977-094-1

We investigate the problem of Min-cost Perfect Matching with Delays (MPMD) in which requests are pairwise matched in an online fashion with the objective to minimize the sum of space cost and time cost. Though linear-MPMD (i.e., time cost is linear in delay) has been thoroughly studied in the literature, it does not well model impatient requests that are common in practice. Thus, we propose convex-MPMD where time cost functions are convex, capturing the situation where time cost increases faster and faster. Since the existing algorithms for linear-MPMD are not competitive any more, we devise a new deterministic algorithm for convex-MPMD problems. For a large class of convex time cost functions, our algorithm achieves a competitive ratio of O(k) on any k-point uniform metric space. Moreover, our deterministic algorithm is asymptotically optimal, which uncover a substantial difference between convex-MPMD and linear-MPMD which allows a deterministic algorithm with constant competitive ratio on any uniform metric space., Leibniz International Proceedings in Informatics (LIPIcs), 123, ISSN:1868-8969, 29th International Symposium on Algorithms and Computation (ISAAC 2018), ISBN:978-3-95977-094-1

Assume for a graph G=(V,E) and an initial configuration, where each node is blue or red, in each discrete-time round all nodes simultaneously update their color to the most frequent color in their neighborhood and a node keeps its color in case of a tie. We study the behavior of this basic process, which is called majority model, on the Erdös-Rényi random graph G_{n,p} and regular expanders. First we consider the behavior of the majority model on G_{n,p} with an initial random configuration, where each node is blue independently with probability p_b and red otherwise. It is shown that in this setting the process goes through a phase transition at the connectivity threshold, namely (log n)/n. Furthermore, we say a graph G is lambda-expander if the second-largest absolute eigenvalue of its adjacency matrix is lambda. We prove that for a Delta-regular lambda-expander graph if lambda/Delta is sufficiently small, then the majority model by starting from (1/2-delta)n blue nodes (for an arbitrarily small constant delta>0) results in fully red configuration in sub-logarithmically many rounds. Roughly speaking, this means the majority model is an "efficient" and "fast" density classifier on regular expanders. As a by-product of our results, we show regular Ramanujan graphs are asymptotically optimally immune, that is for an n-node Delta-regular Ramanujan graph if the initial number of blue nodes is s 0. This settles an open problem by Peleg [Peleg, 2014]., Leibniz International Proceedings in Informatics (LIPIcs), 123, ISSN:1868-8969

We study the problem of counting the isomorphic occurrences of a k-vertex pattern graph P as a subgraph in an n-vertex host graph G. Our specific interest is on algorithms for subgraph counting that are sensitive to the maximum degree Delta of the host graph. Assuming that the pattern graph P is connected and admits a vertex balancer of size b, we present an algorithm that counts the occurrences of P in G in O ((2 Delta-2)^{(k+b)/2} 2^{-b} n/(Delta) k^2 log n) time. We define a balancer as a vertex separator of P that can be represented as an intersection of two equal-size vertex subsets, the union of which is the vertex set of P, and both of which induce connected subgraphs of P. A corollary of our main result is that we can count the number of k-vertex paths in an n-vertex graph in O((2 Delta-2)^{floor[k/2]} n k^2 log n) time, which for all moderately dense graphs with Delta

Motivation: With the increasing availability of large protein–protein interaction networks, the question of protein network alignment is becoming central to systems biology. Network alignment is further delineated into two sub-problems: local alignment, to find small conserved motifs across networks, and global alignment, which attempts to find a best mapping between all nodes of the two networks. In this article, our aim is to improve upon existing global alignment results. Better network alignment will enable, among other things, more accurate identification of functional orthologs across species. Results: We introduce IsoRankN (IsoRank-Nibble) a global multiple-network alignment tool based on spectral clustering on the induced graph of pairwise alignment scores. IsoRankN outperforms existing algorithms for global network alignment in coverage and consistency on multiple alignments of the five available eukaryotic networks. Being based on spectral methods, IsoRankN is both error tolerant and computationally efficient., National Science Council of Taiwan (NSC-096-2917-I- 002-114), National Science Council of Taiwan (NSC-095-2221-E-001-016-MY3), Fannie and John Hertz Foundation