Enhanced reconstruction of weighted networks from strengths and degrees

Existing information-theoretic frameworks based on maximum entropy network ensembles are not able to explain the emergence of heterogeneity in complex networks. Here, we fill this gap of knowledge by developing a classical framework for networks based on finding an optimal trade-off between the information content of a compressed representation of the ensemble and the information content of the actual network ensemble. In this way not only we introduce a novel classical netwo...

The full range of activity in a temporal network is captured in its edge activity data -- time series encoding the tie strengths or on-off dynamics of each edge in the network. However, in many practical applications, edge-level data are unavailable, and the network analyses must rely instead on node activity data which aggregates the edge-activity data and thus is less informative. This raises the question: Is it possible to use the static network to recover the richer edge ...

We describe a new method for the random sampling of connected networks with a specified degree sequence. We consider both the case of simple graphs and that of loopless multigraphs. The constraints of fixed degrees and of connectedness are two of the most commonly needed ones when constructing null models for the practical analysis of physical or biological networks. Yet handling these constraints, let alone combining them, is non-trivial. Our method builds on a recently intr...

Randomized network ensembles are the null models of real networks and are extensivelly used to compare a real system to a null hypothesis. In this paper we study network ensembles with the same degree distribution, the same degree-correlations or the same community structure of any given real network. We characterize these randomized network ensembles by their entropy, i.e. the normalized logarithm of the total number of networks which are part of these ensembles. We estima...

Complex network reconstruction is a hot topic in many fields. Currently, the most popular data-driven reconstruction framework is based on lasso. However, it is found that, in the presence of noise, lasso loses efficiency for weighted networks. This paper builds a new framework to cope with this problem. The key idea is to employ a series of linear regression problems to model the relationship between network nodes, and then to use an efficient variational Bayesian algorithm ...

The vast majority of network datasets contains errors and omissions, although this is rarely incorporated in traditional network analysis. Recently, an increasing effort has been made to fill this methodological gap by developing network reconstruction approaches based on Bayesian inference. These approaches, however, rely on assumptions of uniform error rates and on direct estimations of the existence of each edge via repeated measurements, something that is currently unavai...

Dense networks with weighted connections often exhibit a community like structure, where although most nodes are connected to each other, different patterns of edge weights may emerge depending on each node's community membership. We propose a new framework for generating and estimating dense weighted networks with potentially different connectivity patterns across different communities. The proposed model relies on a particular class of functions which map individual node ch...

Network inference is a rapidly advancing field, with new methods being proposed on a regular basis. Understanding the advantages and limitations of different network inference methods is key to their effective application in different circumstances. The common structural properties shared by diverse networks naturally pose a challenge when it comes to devising accurate inference methods, but surprisingly, there is a paucity of comparison and evaluation methods. Historically, ...

Networks are powerful instruments to study complex phenomena, but they become hard to analyze in data that contain noise. Network backbones provide a tool to extract the latent structure from noisy networks by pruning non-salient edges. We describe a new approach to extract such backbones. We assume that edge weights are drawn from a binomial distribution, and estimate the error-variance in edge weights using a Bayesian framework. Our approach uses a more realistic null model...

The simplest null models for networks, used to distinguish significant features of a particular network from {\it a priori} expected features, are random ensembles with the degree sequence fixed by the specific network of interest. These "fixed degree sequence" (FDS) ensembles are, however, famously resistant to analytic attack. In this paper we introduce ensembles with partially-fixed degree sequences (PFDS) and compare analytic results obtained for them with Monte Carlo res...