In this paper, we are interested in algorithms that take in input an arbitrary graph $G$, and that enumerate in output all the (inclusion-wise) maximal "subgraphs" of $G$ which fulfil a given property $Π$. All over this paper, we study several different properties $Π$, and the notion of subgraph under consideration (induced or not) will vary from a result to another.
More precisely, we present efficient algorithms to list all maximal split subgraphs, sub-cographs and some subclasses of cographs of a given input graph. All the algorithms presented here run in polynomial delay, and moreover for split graphs it only requires polynomial space. In order to develop an algorithm for maximal split (edge-)subgraphs, we establish a bijection between the maximal split subgraphs and the maximal independent sets of an auxiliary graph. For cographs and some subclasses , the algorithms rely on a framework recently introduced by Conte & Uno called Proximity Search. Finally we consider the extension problem, which consists in deciding if there exists a maximal induced subgraph satisfying a property $Π$ that contains a set of prescribed vertices and that avoids another set of vertices. We show that this problem is NP-complete for every "interesting" hereditary property $Π$. We extend the hardness result to some specific edge version of the extension problem.
A graph is a cograph if it does not contain a 4-vertex path as an induced subgraph. An $(s, k)$-polar partition of a graph $G$ is a partition $(A, B)$ of its vertex set such that $A$ induces a complete multipartite graph with at most $s$ parts, and $B$ induces the disjoint union of at most $k$ cliques with no other edges. A graph $G$ is said to be $(s, k)$-polar if it admits an $(s, k)$-polar partition. The concepts of $(s, \infty)$-, $(\infty, k)$-, and $(\infty, \infty)$-polar graphs can be analogously defined. Ekim, Mahadev and de Werra pioneered in the research on polar cographs, obtaining…
Let $k,l$ be nonnegative integers. A graph $G$ is $(k,l)$-polar if its vertex set admits a partition $(A,B)$ such that $A$ induces a complete multipartite graph with at most $k$ parts, and $B$ induces a disjoint union of at most $l$ cliques with no other edges. A graph is a cograph if it does not contain $P_4$ as an induced subgraph. It is known that $(k,l)$-polar cographs can be characterized through a finite family of forbidden induced subgraphs, for any fixed choice of $k$ and $l$. The problem of determining the exact members of such family for $k = 2 = l$ was posted by Ekim, Mahadev and de…
Let G and H be two cographs. We show that the problem to determine whether H is a retract of G is NP-complete. We show that this problem is fixed-parameter tractable when parameterized by the size of H. When restricted to the class of threshold graphs or to the class of trivially perfect graphs, the problem becomes tractable in polynomial time. The problem is also soluble when one cograph is given as an induced subgraph of the other. We characterize absolute retracts of cographs.
Arboricity is a graph parameter akin to chromatic number, in that it seeks to partition the vertices into the smallest number of sparse subgraphs. Where for the chromatic number we are partitioning the vertices into independent sets, for the arboricity we want to partition the vertices into cycle-free subsets (i.e., forests). Arboricity is NP-hard in general, and our focus is on the arboricity of cographs. For arboricity two, we obtain the complete list of minimal cograph obstructions. These minimal obstructions do generalize to higher arboricities; however, we no longer have a complete list, …
Many fixed-parameter tractable algorithms using a bounded search tree have been repeatedly improved, often by describing a larger number of branching rules involving an increasingly complex case analysis. We introduce a novel and general search strategy that branches on the forbidden subgraphs of a graph class relaxation. By using the class of $P_4$-sparse graphs as the relaxed graph class, we obtain efficient bounded search tree algorithms for several parameterized deletion problems. We give the first non-trivial bounded search tree algorithms for the cograph edge-deletion problem and the tri…
Cographs are exactly hereditarily well-colored graphs, i.e., the graphs for which a greedy coloring of every induced subgraph uses only the minimally necessary number of colors $χ(G)$. In recent work on reciprocal best match graphs so-called hierarchically coloring play an important role. Here we show that greedy colorings are a special case of hierarchical coloring, which also require no more than $χ(G)$ colors.
Given a simple graph $G$, a set $C \subseteq V(G)$ is a neighborhood cover set if every edge and vertex of $G$ belongs to some $G[v]$ with $v \in C$, where $G[v]$ denotes the subgraph of $G$ induced by the closed neighborhood of the vertex $v$. Two elements of $E(G) \cup V(G)$ are neighborhood-independent if there is no vertex $v\in V(G)$ such that both elements are in $G[v]$. A set $S\subseteq V(G)\cup E(G)$ is neighborhood-independent if every pair of elements of $S$ is neighborhood-independent. Let $ρ_{\mathrm n}(G)$ be the size of a minimum neighborhood cover set and $α_{\mathrm n}(G)$ of …
Symbolic ultrametrics define edge-colored complete graphs K_n and yield a simple tree representation of K_n. We discuss, under which conditions this idea can be generalized to find a symbolic ultrametric that, in addition, distinguishes between edges and non-edges of arbitrary graphs G=(V,E) and thus, yielding a simple tree representation of G. We prove that such a symbolic ultrametric can only be defined for G if and only if G is a so-called cograph. A cograph is uniquely determined by a so-called cotree. As not all graphs are cographs, we ask, furthermore, what is the minimum number of cotre…
Tree representations of (sets of) symmetric binary relations, or equivalently edge-colored undirected graphs, are of central interest, e.g.\ in phylogenomics. In this context symbolic ultrametrics play a crucial role. Symbolic ultrametrics define an edge-colored complete graph that allows to represent the topology of this graph as a vertex-colored tree. Here, we are interested in the structure and the complexity of certain combinatorial problems resulting from considerations based on symbolic ultrametrics, and on algorithms to solve them. This includes, the characterization of symbolic ultrame…
In a finite undirected simple graph, a {\it chordless cycle} is an induced subgraph which is a cycle. We propose two algorithms to enumerate all chordless cycles of such a graph. Compared to other similar algorithms, the proposed algorithms have the advantage of finding each chordless cycle only once. To ensure this, we introduced the concepts of vertex labeling and initial valid vertex triplet. To guarantee that the expansion of a given chordless path will always lead to a chordless cycle, we use a breadth-first search in a subgraph obtained by the elimination of many of the vertices from the…
Forbidden characterizations may sometimes be the most natural way to describe families of graphs, and yet these characterizations are usually very hard to exploit for enumerative purposes. By building on the work of Gioan and Paul (2012) and Chauve et al. (2014), we show a methodology by which we constrain a split-decomposition tree to avoid certain patterns, thereby avoiding the corresponding induced subgraphs in the original graph. We thus provide the grammars and full enumeration for a wide set of graph classes: ptolemaic, block, and variants of cactus graphs (2,3-cacti, 3-cacti and 4-cacti…
In a finite undirected simple graph, a chordless cycle is an induced subgraph which is a cycle. A graph is called cyclically orientable if it admits an orientation in which every chordless cycle is cyclically oriented. We propose an algorithm to enumerate all chordless cycles of such a graph. Compared to other similar algorithms, the proposed algorithm have the advantage of finding each chordless cycle only once in time complexity $\mathcal{O}(n^2)$ in the input size, where $n$ is the number of vertices.
Fox et al. [SIAM J. Comp. 2020] introduced a new parameter, called $c$-closure, for a parameterized study of clique enumeration problems. A graph $G$ is $c$-closed if every pair of vertices with at least $c$ common neighbors is adjacent. The $c$-closure of $G$ is the smallest $c$ such that $G$ is $c$-closed. We systematically explore the impact of $c$-closure on the computational complexity of detecting and enumerating small induced subgraphs. More precisely, for each graph $H$ on three or four vertices, we investigate parameterized polynomial-time algorithms for detecting $H$ and for enumerat…
Counting the frequency of small subgraphs is a fundamental technique in network analysis across various domains, most notably in bioinformatics and social networks. The special case of triangle counting has received much attention. Getting results for 4-vertex patterns is highly challenging, and there are few practical results known that can scale to massive sizes. Indeed, even a highly tuned enumeration code takes more than a day on a graph with millions of edges. Most previous work that runs for truly massive graphs employ clusters and massive parallelization. We provide a sampling algorithm…
Cographs are exactly the hereditarily well-colored graphs, i.e., the graphs for which a greedy vertex coloring of every induced subgraph uses only the minimally necessary number of colors $χ(G)$. We show that greedy colorings are a special case of the more general hierarchical vertex colorings, which recently were introduced in phylogenetic combinatorics. Replacing cotrees by modular decomposition trees generalizes the concept of hierarchical colorings to arbitrary graphs. We show that every graph has a modularly-minimal coloring $σ$ satisfying $|σ(M)|=χ(M)$ for every strong module $M$ of $G$.…
For a connected graph, a vertex separator is a set of vertices whose removal creates at least two components. A vertex separator $S$ is minimal if it contains no other separator as a strict subset and a minimum vertex separator is a minimal vertex separator of least cardinality. A {\em clique} is a set of mutually adjacent vertices. A 2-tree is a connected graph in which every maximal clique is of size three and every minimal vertex separator is of size two. A spanning tree of a graph $G$ is a connected and an acyclic subgraph of $G$. In this paper, we focus our attention on two enumeration pr…
A graph $G$ is weakly $γ$-closed if every induced subgraph of $G$ contains one vertex $v$ such that for each non-neighbor $u$ of $v$ it holds that $|N(u)\cap N(v)|<γ$. The weak closure $γ(G)$ of a graph, recently introduced by Fox et al. [SIAM J. Comp. 2020], is the smallest number such that $G$ is weakly $γ$-closed. This graph parameter is never larger than the degeneracy (plus one) and can be significantly smaller. Extending the work of Fox et al. [SIAM J. Comp. 2020] on clique enumeration, we show that several problems related to finding dense subgraphs, such as the enumeration of bicliques…
Classes with bounded rankwidth are MSO-transductions of trees and classes with bounded linear rankwidth are MSO-transductions of paths. These results show a strong link between the properties of these graph classes considered from the point of view of structural graph theory and from the point of view of finite model theory. We take both views on classes with bounded linear rankwidth and prove structural and model theoretic properties of these classes: 1) Graphs with linear rankwidth at most $r$ are linearly \mbox{$χ$-bounded}. Actually, they have bounded $c$-chromatic number, meaning that the…
A biclique is a set of vertices that induce a bipartite complete graph. A graph G is biclique-Helly when its family of maximal bicliques satisfies the Helly property. If every induced subgraph of G is also biclique-Helly, then G is hereditary biclique-Helly. A graph is C_4-dominated when every cycle of length 4 contains a vertex that is dominated by the vertex of the cycle that is not adjacent to it. In this paper we show that the class of hereditary biclique-Helly graphs is formed precisely by those C_4-dominated graphs that contain no triangles and no induced cycles of length either 5, or 6.…
In this paper, as a new notion, we define a transitive system to be a set system $(V, {\mathcal C}\subseteq 2^V)$ on a finite set $V$ of elements such that every three sets $X,Y,Z\in{\mathcal C}$ with $Z\subseteq X\cap Y$ implies $X\cup Y\in{\mathcal C}$, where we call a set $C\in {\mathcal C}$ a component. We assume that two oracles $\mathrm{L}_1$ and $\mathrm{L}_2$ are available, where given two subsets $X,Y\subseteq V$, $\mathrm{L}_1$ returns a maximal component $C\in {\mathcal C}$ with $X\subseteq C\subseteq Y$; and given a set $Y\subseteq V$, $\mathrm{L}_2$ returns all maximal components …
Transductions are a general formalism for expressing transformations of graphs (and more generally, of relational structures) in logic. We prove that a graph class $\mathscr{C}$ can be $\mathsf{FO}$-transduced from a class of bounded-height trees (that is, has bounded shrubdepth) if, and only if, from $\mathscr{C}$ one cannot $\mathsf{FO}$-transduce the class of all paths. This establishes one of the three remaining open questions posed by Blumensath and Courcelle about the $\mathsf{MSO}$-transduction quasi-order, even in the stronger form that concerns $\mathsf{FO}$-transductions instead of $…
Algorithms for listing the subgraphs satisfying a given property (e.g.,being a clique, a cut, a cycle, etc.) fall within the general framework of set systems. A set system (U, F) uses a ground set U (e.g., the network nodes) and an indicator F, subset of 2^U, of which subsets of U have the required property. For the problem of listing all sets in F maximal under inclusion, the ambitious goal is to cover a large class of set systems, preserving at the same time the efficiency of the enumeration. Among the existing algorithms, the best-known ones list the maximal subsets in time proportional to …
Classes with bounded rankwidth are MSO-transductions of trees and classes with bounded linear rankwidth are MSO-transductions of paths -- a result that shows a strong link between the properties of these graph classes considered from the point of view of structural graph theory and from the point of view of finite model theory. We take both views on classes with bounded linear rankwidth and prove structural and model theoretic properties of these classes. The structural results we obtain are the following. 1) The number of unlabeled graphs of order $n$ with linear rank-width at most~$r$ is at …
Fast Enumeration of Minimal Removable Sets in Monotone Systems with Application to Core Collapse Analysis
Graduate School of Informatics, Kyoto University（京都大学情报学研究科）；Department of Logistics and Information Engineering, Tokyo University of Marine Science and Technology（东京海洋大学物流信息工程系）
A graph is concave-round if its vertices can be circularly enumerated so that the closed neighbourhood of each vertex is an interval in the enumeration. In this work, we give a minimal forbidden induced subgraph characterization for the class of concave-round graphs, solving a problem posed by Bang-Jensen, Huang, and Yeo [SIAM J Discrete Math, 13:179--193, 2000]. In addition, we show that it is possible to find one such forbidden induced subgraph in linear time in any given graph that is not concave-round. As part of the analysis, we obtain characterizations by minimal forbidden submatrices fo…
Compressed sensing is a technique for finding sparse solutions to underdetermined linear systems. This technique relies on properties of the sensing matrix such as the restricted isometry property. Sensing matrices that satisfy the restricted isometry property with optimal parameters are mainly obtained via probabilistic arguments. Given any matrix, deciding whether it satisfies the restricted isometry property is a non-trivial computational problem. In this paper, we give reductions from dense subgraph problems to the certification of the restricted isometry property. This gives evidence that…
A graph is called $P_t$-free} if it does not contain a $t$-vertex path as an induced subgraph. While $P_4$-free graphs are exactly cographs, the structure of $P_t$-free graphs for $t \geq 5$ remains little understood. On one hand, classic computational problems such as Maximum Weight Independent Set (MWIS) and $3$-Coloring are not known to be NP-hard on $P_t$-free graphs for any fixed $t$. On the other hand, despite significant effort, polynomial-time algorithms for MWIS in $P_6$-free graphs~[SODA 2019] and $3$-Coloring in $P_7$-free graphs~[Combinatorica 2018] have been found only recently. I…
