arXiv subjects

Jessica Enright

Publications and source records attributed to Jessica Enright.

31 records · Page 2Linked to original sources

arXiv2022

The complexity of finding and enumerating optimal subgraphs to represent spatial correlation

Understanding spatial correlation is vital in many fields including epidemiology and social science. Lee, Meeks and Pettersson (Stat. Comput. 2021) recently demonstrated that improved inference for areal unit count data can be achieved by carrying out modifications to a graph representing spatial correlations; specifically, they delete edges of the planar graph derived from border-sharing between geographic regions in order to maximise a specific objective function. In this paper we address the computational complexity of the associated graph optimisation problem. We demonstrate that this problem cannot be solved in polynomial time unless P = NP; we further show intractability for two simpler variants of the problem. We follow these results with two parameterised algorithms that exactly solve the problem. Both of these solve not only the decision problem, but also enumerate all solutions with polynomial time precalculation, delay, and postcalculation time in respective restricted settings. For this problem, efficient enumeration allows the uncertainty in the spatial correlation to be utilised in the modelling. The first enumeration algorithm utilises dynamic programming on a tree decomposition, and has polynomial time precalculation and linear delay if both the treewidth and maximum degree are bounded. The second algorithm is restricted to problem instances with maximum degree three, as may arise from triangulations of planar surfaces, but can output all solutions with FPT precalculation time and linear delay when the maximum number of edges that can be removed is taken as the parameter.

cs.DS↗

arXiv2022

Visualization for Epidemiological Modelling: Challenges, Solutions, Reflections & Recommendations

We report on an ongoing collaboration between epidemiological modellers and visualization researchers by documenting and reflecting upon knowledge constructs -- a series of ideas, approaches and methods taken from existing visualization research and practice -- deployed and developed to support modelling of the COVID-19 pandemic. Structured independent commentary on these efforts is synthesized through iterative reflection to develop: evidence of the effectiveness and value of visualization in this context; open problems upon which the research communities may focus; guidance for future activity of this type; and recommendations to safeguard the achievements and promote, advance, secure and prepare for future collaborations of this kind. In describing and comparing a series of related projects that were undertaken in unprecedented conditions, our hope is that this unique report, and its rich interactive supplementary materials, will guide the scientific community in embracing visualization in its observation, analysis and modelling of data as well as in disseminating findings. Equally we hope to encourage the visualization community to engage with impactful science in addressing its emerging data challenges. If we are successful, this showcase of activity may stimulate mutually beneficial engagement between communities with complementary expertise to address problems of significance in epidemiology and beyond. https://ramp-vis.github.io/RAMPVIS-PhilTransA-Supplement/

cs.HC↗

arXiv2022

FAIR Data Pipeline: provenance-driven data management for traceable scientific workflows

Modern epidemiological analyses to understand and combat the spread of disease depend critically on access to, and use of, data. Rapidly evolving data, such as data streams changing during a disease outbreak, are particularly challenging. Data management is further complicated by data being imprecisely identified when used. Public trust in policy decisions resulting from such analyses is easily damaged and is often low, with cynicism arising where claims of "following the science" are made without accompanying evidence. Tracing the provenance of such decisions back through open software to primary data would clarify this evidence, enhancing the transparency of the decision-making process. Here, we demonstrate a Findable, Accessible, Interoperable and Reusable (FAIR) data pipeline developed during the COVID-19 pandemic that allows easy annotation of data as they are consumed by analyses, while tracing the provenance of scientific outputs back through the analytical source code to data sources. Such a tool provides a mechanism for the public, and fellow scientists, to better assess the trust that should be placed in scientific evidence, while allowing scientists to support policy-makers in openly justifying their decisions. We believe that tools such as this should be promoted for use across all areas of policy-facing research.

q-bio.QM↗

arXiv2022

Making Life More Confusing for Firefighters

It is well known that fighting a fire is a hard task. The Firefighter problem asks how to optimally deploy firefighters to defend the vertices of a graph from a fire. This problem is NP-Complete on all but a few classes of graphs. Thankfully, firefighters do not have to work alone, and are often aided by the efforts of good natured civilians who slow the spread of a fire by maintaining firebreaks when they are able. We will show that this help, although well-intentioned, unfortunately makes the optimal deployment of firefighters an even harder problem. To model this scenario we introduce the Temporal Firefighter problem, an extension of Firefighter to temporal graphs. We show that Temporal Firefighter is also NP-Complete, and remains so on all but one of the underlying classes of graphs on which Firefighter is known to have polynomial time solutions. This motivates us to explore making use of the temporal structure of the graph in our search for tractability, and we conclude by presenting an FPT algorithm for Temporal Firefighter with respect to the temporal graph parameter vertex-interval-membership-width.

cs.DS↗

arXiv2021

Recognising the overlap graphs of subtrees of restricted trees is hard

The overlap graphs of subtrees in a tree (SOGs) generalise many other graphs classes with set representation characterisations. The complexity of recognising SOGs in open. The complexities of recognising many subclasses of SOGs are known. We consider several subclasses of SOGs by restricting the underlying tree. For a fixed integer $k \geq 3$, we consider: \begin{my_itemize} \item The overlap graphs of subtrees in a tree where that tree has $k$ leaves \item The overlap graphs of subtrees in trees that can be derived from a given input tree by subdivision and have at least 3 leaves \item The overlap and intersection graphs of paths in a tree where that tree has maximum degree $k$ \end{my_itemize} We show that the recognition problems of these classes are NP-complete. For all other parameters we get circle graphs, well known to be polynomially recognizable.

cs.CC↗

arXiv2021

Deleting edges to restrict the size of an epidemic in temporal networks

Spreading processes on graphs are a natural model for a wide variety of real-world phenomena, including information spread over social networks and biological diseases spreading over contact networks. Often, the networks over which these processes spread are dynamic in nature, and can be modeled with temporal graphs. Here, we study the problem of deleting edges from a given temporal graph in order to reduce the number of vertices (temporally) reachable from a given starting point. This could be used to control the spread of a disease, rumour, etc. in a temporal graph. In particular, our aim is to find a temporal subgraph in which a process starting at any single vertex can be transferred to only a limited number of other vertices using a temporally-feasible path. We introduce a natural edge-deletion problem for temporal graphs and provide positive and negative results on its computational complexity and approximability.

cs.DS↗

arXiv2020

Assigning times to minimise reachability in temporal graphs

Temporal graphs (in which edges are active at specified times) are of particular relevance for spreading processes on graphs, e.g.~the spread of disease or dissemination of information. Motivated by real-world applications, modification of static graphs to control this spread has proven a rich topic for previous research. Here, we introduce a new type of modification for temporal graphs: the number of active times for each edge is fixed, but we can change the relative order in which (sets of) edges are active. We investigate the problem of determining an ordering of edges that minimises the maximum number of vertices reachable from any single starting vertex; epidemiologically, this corresponds to the worst-case number of vertices infected in a single disease outbreak. We study two versions of this problem, both of which we show to be $\NP$-hard, and identify cases in which the problem can be solved or approximated efficiently.

cs.CC↗

arXiv2020

Two dichotomies for model-checking in multi-layer structures

Multi-layer graphs can capture qualitatively different types of connection between entities, and networks of this kind are prevalent in biological and social systems: for example, a social contact network typically involves both virtual and face-to-face interactions between individuals. Since each layer is likely to exhibit stronger and/or more easily identifiable structurally properties than the overall system, it is natural to ask whether we can exploit the structural properties of individual layers to solve NP-hard problems efficiently on the overall network. In this paper we provide a complete characterisation of the structural properties required in each layer to guarantee the existence of an FPT algorithm to solve problems definable in either first-order or monadic second-order logic on the overall system, subject to the assumption that the structural properties are preserved under deletion of vertices and/or edges.

cs.DM↗

arXiv2020

The Firebreak Problem

Suppose we have a network that is represented by a graph $G$. Potentially a fire (or other type of contagion) might erupt at some vertex of $G$. We are able to respond to this outbreak by establishing a firebreak at $k$ other vertices of $G$, so that the fire cannot pass through these fortified vertices. The question that now arises is which $k$ vertices will result in the greatest number of vertices being saved from the fire, assuming that the fire will spread to every vertex that is not fully behind the $k$ vertices of the firebreak. This is the essence of the {\sc Firebreak} decision problem, which is the focus of this paper. We establish that the problem is intractable on the class of split graphs as well as on the class of bipartite graphs, but can be solved in linear time when restricted to graphs having constant-bounded treewidth, or in polynomial time when restricted to intersection graphs. We also consider some closely related problems.

math.CO↗

arXiv2017

Equivalence of the filament and overlap graphs of subtrees of limited trees

The overlap graphs of subtrees of a tree are equivalent to subtree filament graphs, the overlap graphs of subtrees of a star are cocomparability graphs, and the overlap graphs of subtrees of a caterpillar are interval filament graphs. In this paper, we show the equivalence of many more classes of subtree overlap and subtree filament graphs, and equate them to classes of complements of cochordal-mixed graphs. Our results generalize the previously known results mentioned above.

cs.DM↗

arXiv2017

Deleting edges to restrict the size of an epidemic

Motivated by applications in network epidemiology, we consider the problem of determining whether it is possible to delete at most $k$ edges from a given input graph (of small treewidth) so that the resulting graph avoids a set $\mathcal{F}$ of forbidden subgraphs; of particular interest is the problem of determining whether it is possible to delete at most $k$ edges so that the resulting graph has no connected component of more than $h$ vertices, as this bounds the worst-case size of an epidemic. While even this special case of the problem is NP-complete in general (even when $h=3$), we provide evidence that many of the real-world networks of interest are likely to have small treewidth, and we describe an algorithm which solves the general problem in time \genruntime ~on an input graph having $n$ vertices and whose treewidth is bounded by a fixed constant $w$, if each of the subgraphs we wish to avoid has at most $r$ vertices. For the special case in which we wish only to ensure that no component has more than $h$ vertices, we improve on this to give an algorithm running in time $O((wh)^{2w}n)$, which we have implemented and tested on real datasets based on cattle movements.

cs.DS↗

arXiv2012

On List Colouring and List Homomorphism of Permutation and Interval Graphs

List colouring is an NP-complete decision problem even if the total number of colours is three. It is hard even on planar bipartite graphs. We give a polynomial-time algorithm for solving list colouring of permutation graphs with a bounded total number of colours. More generally we give a polynomial-time algorithm that solves the list-homomorphism problem to any fixed target graph for a large class of input graphs including all permutation and interval graphs.

cs.DM↗

arXiv2011

3-List Colouring Permutation Graphs

3-list colouring is an NP-complete decision problem. It is hard even on planar bipartite graphs. We give a polynomial-time algorithm for solving 3-list colouring on permutation graphs.

cs.DM↗