On the Complexity of Recovering Incidence Matrices

The incidence matrix of a graph is a fundamental object naturally appearing in many applications, involving graphs such as social networks, communication networks, or transportation networks. Often, the data collected about the incidence relations can have some slight noise. In this paper, we initiate the study of the computational complexity of recovering incidence matrices of graphs from a binary matrix: given a binary matrix M which can be written as the superposition of two binary matrices L and S, where S is the incidence matrix of a graph from a specified graph class, and L is a matrix (i) of small rank or, (ii) of small (Hamming) weight. Further, identify all those graphs whose incidence matrices form part of such a superposition. Here, L represents the noise in the input matrix M. Another motivation for this problem comes from the Matroid Minors project of Geelen, Gerards and Whittle, where perturbed graphic and co-graphic matroids play a prominent role. There, it is expected that a perturbed binary matroid (or its dual) is presented as L+S where L is a low rank matrix and S is the incidence matrix of a graph. Here, we address the complexity of constructing such a decomposition. When L is of small rank, we show that the problem is NP-complete, but it can be decided in time (mn)^O(r), where m,n are dimensions of M and r is an upper-bound on the rank of L. When L is of small weight, then the problem is solvable in polynomial time (mn)^O(1). Furthermore, in many applications it is desirable to have the list of all possible solutions for further analysis. We show that our algorithms naturally extend to enumeration algorithms for the above two problems with delay (mn)^O(r) and (mn)^O(1), respectively, between consecutive outputs

QuateXelero : an accelerated exact network motif detection algorithm

Finding motifs in biological, social, technological, and other types of networks has become a widespread method to gain more knowledge about these networks’ structure and function. However, this task is very computationally demanding, because it is highly associated with the graph isomorphism which is an NP problem (not known to belong to P or NP-complete subsets yet). Accordingly, this research is endeavoring to decrease the need to call NAUTY isomorphism detection method, which is the most time-consuming step in many existing algorithms. The work provides an extremely fast motif detection algorithm called QuateXelero, which has a Quaternary Tree data structure in the heart. The proposed algorithm is based on the well-known ESU (FANMOD) motif detection algorithm. The results of experiments on some standard model networks approve the overal superiority of the proposed algorithm, namely QuateXelero, compared with two of the fastest existing algorithms, G-Tries and Kavosh. QuateXelero is especially fastest in constructing the central data structure of the algorithm from scratch based on the input network

Accuracy of Name and Age Data Provided About Network Members in a Social Network Study of People Who Use Drugs: Implications for Constructing Sociometric Networks

Purpose—Network analysis has become increasingly popular in epidemiologic research, but the accuracy of data key to constructing risk networks is largely unknown. Using network data from people who use drugs (PWUD), the study examined how accurately PWUD reported their network members’ (i.e., alters’) names and ages. Methods—Data were collected from 2008 to 2010 from 503 PWUD residing in rural Appalachia. Network ties (n=897) involved recent (past 6 months) sex, drug co-usage, and/or social support. Participants provided alters’ names, ages, and relationship-level characteristics; these data were cross-referenced to that of other participants to identify participant-participant relationships and to determine the accuracy of reported ages (years) and names (binary). Results—Participants gave alters’ exact names and ages within two years in 75% and 79% of relationships, respectively. Accurate name was more common in relationships that were reciprocally reported and those involving social support and male alters. Age was more accurate in reciprocal ties and those characterized by kinship, sexual partnership, recruitment referral, and financial support, and less accurate for ties with older alters. Conclusions—Most participants reported alters’ characteristics accurately, and name accuracy was not significantly different in relationships involving drug-related/sexual behavior compared to those not involving these behaviors

Hierarchical ordering of reticular networks

The structure of hierarchical networks in biological and physical systems has long been characterized using the Horton-Strahler ordering scheme. The scheme assigns an integer order to each edge in the network based on the topology of branching such that the order increases from distal parts of the network (e.g., mountain streams or capillaries) to the "root" of the network (e.g., the river outlet or the aorta). However, Horton-Strahler ordering cannot be applied to networks with loops because they they create a contradiction in the edge ordering in terms of which edge precedes another in the hierarchy. Here, we present a generalization of the Horton-Strahler order to weighted planar reticular networks, where weights are assumed to correlate with the importance of network edges, e.g., weights estimated from edge widths may correlate to flow capacity. Our method assigns hierarchical levels not only to edges of the network, but also to its loops, and classifies the edges into reticular edges, which are responsible for loop formation, and tree edges. In addition, we perform a detailed and rigorous theoretical analysis of the sensitivity of the hierarchical levels to weight perturbations. We discuss applications of this generalized Horton-Strahler ordering to the study of leaf venation and other biological networks.Comment: 9 pages, 5 figures, During preparation of this manuscript the authors became aware of a related work by Katifori and Magnasco, concurrently submitted for publicatio