39,282 research outputs found
A Combinatorial Algorithm for All-Pairs Shortest Paths in Directed Vertex-Weighted Graphs with Applications to Disc Graphs
We consider the problem of computing all-pairs shortest paths in a directed
graph with real weights assigned to vertices.
For an 0-1 matrix let be the complete weighted graph
on the rows of where the weight of an edge between two rows is equal to
their Hamming distance. Let be the weight of a minimum weight spanning
tree of
We show that the all-pairs shortest path problem for a directed graph on
vertices with nonnegative real weights and adjacency matrix can be
solved by a combinatorial randomized algorithm in time
As a corollary, we conclude that the transitive closure of a directed graph
can be computed by a combinatorial randomized algorithm in the
aforementioned time.
We also conclude that the all-pairs shortest path problem for uniform disk
graphs, with nonnegative real vertex weights, induced by point sets of bounded
density within a unit square can be solved in time
Distances and Isomorphism between Networks and the Stability of Network Invariants
We develop the theoretical foundations of a network distance that has
recently been applied to various subfields of topological data analysis, namely
persistent homology and hierarchical clustering. While this network distance
has previously appeared in the context of finite networks, we extend the
setting to that of compact networks. The main challenge in this new setting is
the lack of an easy notion of sampling from compact networks; we solve this
problem in the process of obtaining our results. The generality of our setting
means that we automatically establish results for exotic objects such as
directed metric spaces and Finsler manifolds. We identify readily computable
network invariants and establish their quantitative stability under this
network distance. We also discuss the computational complexity involved in
precisely computing this distance, and develop easily-computable lower bounds
by using the identified invariants. By constructing a wide range of explicit
examples, we show that these lower bounds are effective in distinguishing
between networks. Finally, we provide a simple algorithm that computes a lower
bound on the distance between two networks in polynomial time and illustrate
our metric and invariant constructions on a database of random networks and a
database of simulated hippocampal networks
Visual Detection of Structural Changes in Time-Varying Graphs Using Persistent Homology
Topological data analysis is an emerging area in exploratory data analysis
and data mining. Its main tool, persistent homology, has become a popular
technique to study the structure of complex, high-dimensional data. In this
paper, we propose a novel method using persistent homology to quantify
structural changes in time-varying graphs. Specifically, we transform each
instance of the time-varying graph into metric spaces, extract topological
features using persistent homology, and compare those features over time. We
provide a visualization that assists in time-varying graph exploration and
helps to identify patterns of behavior within the data. To validate our
approach, we conduct several case studies on real world data sets and show how
our method can find cyclic patterns, deviations from those patterns, and
one-time events in time-varying graphs. We also examine whether
persistence-based similarity measure as a graph metric satisfies a set of
well-established, desirable properties for graph metrics
Persistent Homology Guided Force-Directed Graph Layouts
Graphs are commonly used to encode relationships among entities, yet their
abstractness makes them difficult to analyze. Node-link diagrams are popular
for drawing graphs, and force-directed layouts provide a flexible method for
node arrangements that use local relationships in an attempt to reveal the
global shape of the graph. However, clutter and overlap of unrelated structures
can lead to confusing graph visualizations. This paper leverages the persistent
homology features of an undirected graph as derived information for interactive
manipulation of force-directed layouts. We first discuss how to efficiently
extract 0-dimensional persistent homology features from both weighted and
unweighted undirected graphs. We then introduce the interactive persistence
barcode used to manipulate the force-directed graph layout. In particular, the
user adds and removes contracting and repulsing forces generated by the
persistent homology features, eventually selecting the set of persistent
homology features that most improve the layout. Finally, we demonstrate the
utility of our approach across a variety of synthetic and real datasets
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