arXiv subjects

Brittany Terese Fasy

Publications and source records attributed to Brittany Terese Fasy.

At least 19 recordsLinked to original sources

arXiv2026

Parametric Shortest Paths in a Linearly Interpolated Graph

We consider the parametric shortest paths problem in a linearly interpolated graph. Given two positively-weighted directed graphs $G_0=(V,E,ω_0)$ and $G_1=(V,E,ω_1),$ the linearly interpolated graph is the family of graphs $(1-λ)G_0+λG_1$, parameterized by $λ\in [0,1]$. The problem is to compute all distinct parametric shortest paths. We compute a data structure in $Θ(k|E|\log |V|)$ time, where~$k$ is the number of distinct parametric shortest paths over all~$λ\in [0,1]$ that exist for a nontrivial interval of parameters, each corresponding to a linear function in a maximal sub-interval of $[0,1]$. Using this data structure, a shortest path query takes~$Θ(\log k)$ time.

cs.CG↗

arXiv2026

Tensor Computation of Euler Characteristic Functions and Transforms

The weighted Euler characteristic transform (WECT) and Euler characteristic function (ECF) have proven to be useful tools in a variety of applications. However, current methods for computing these functions are either not optimized for GPU computation or do not scale to higher-dimensional settings. In this work, we present a tensor-based framework for computing such topological descriptors which is highly optimized for GPU architectures and works in full generality across simplicial and cubical complexes of arbitrary dimension. Experimentally, the framework demonstrates significant speedups over existing methods when computing the WECT and ECF across a variety of two- and three-dimensional datasets. Computation of these transforms is implemented in a publicly available Python package called pyECT.

cs.CG↗

arXiv2025

Too Many or Too Few? Sampling Bounds for Topological Descriptors

Topological descriptors, such as the Euler characteristic function and the persistence diagram, have grown increasingly popular for representing complex data. Recent work showed that a carefully chosen set of these descriptors encodes all of the geometric and topological information about a shape in R^d. In practice, epsilon nets are often used to find samples in one of two extremes. On one hand, making strong geometric assumptions about the shape allows us to choose epsilon small enough (corresponding to a high enough density sample) in order to guarantee a faithful representation, resulting in oversampling. On the other hand, if we choose a larger epsilon in order to allow faster computations, this leads to an incomplete description of the shape and a discretized transform that lacks theoretical guarantees. In this work, we investigate how many directions are really needed to represent geometric simplicial complexes, exploring both synthetic and real-world datasets. We provide constructive proofs that help establish size bounds and an experimental investigation giving insights into the consequences of over- and undersampling.

cs.CG↗

arXiv2025

Gromov-Hausdorff Distance for Directed Spaces

The Gromov-Hausdorff distance measures the similarity between two metric spaces by isometrically embedding them into an ambient metric space. We introduce an analogue of this distance for metric spaces endowed with directed structures. The directed Gromov-Hausdorff distance measures the distance between two extended metric spaces, where the new metric, defined on the same underlying space, is induced by the length of zigzag paths. This distance is then computed by isometrically embedding the directed metric spaces into an ambient directed space equipped with the zigzag distance. Analogously to the classical Gromov-Hausdorff distance, we also propose alternative formulations based on the distortion of d-maps and d-correspondences. However, unlike the classical case, these directed distances are not equivalent.

math.AT↗

arXiv2025

Drawing Reeb Graphs

Reeb graphs are simple topological descriptors with applications in many areas like topological data analysis and computational geometry. Despite their prevalence, visualization of Reeb graphs has received less attention. In this paper, we bridge an essential gap in the literature by exploring the complexity of drawing Reeb graphs. Specifically, we demonstrate that Reeb graph crossing number minimization is NP-hard, both for straight-lined and curved edges. On the other hand, we identify specific classes of Reeb graphs, namely paths and caterpillars, for which crossing-free drawings exist. We also give an optimal algorithm for drawing cycle-shaped Reeb graphs with the least number of crossings and provide initial observations on the complexities of drawing multi-cycle Reeb graphs. We hope that this work establishes the foundation for an understanding of the graph drawing challenges inherent in Reeb graph visualization and paves the way for future work in this area.

cs.CG↗

arXiv2024

Rapid and Precise Topological Comparison with Merge Tree Neural Networks

Merge trees are a valuable tool in the scientific visualization of scalar fields; however, current methods for merge tree comparisons are computationally expensive, primarily due to the exhaustive matching between tree nodes. To address this challenge, we introduce the Merge Tree Neural Network (MTNN), a learned neural network model designed for merge tree comparison. The MTNN enables rapid and high-quality similarity computation. We first demonstrate how to train graph neural networks, which emerged as effective encoders for graphs, in order to produce embeddings of merge trees in vector spaces for efficient similarity comparison. Next, we formulate the novel MTNN model that further improves the similarity comparisons by integrating the tree and node embeddings with a new topological attention mechanism. We demonstrate the effectiveness of our model on real-world data in different domains and examine our model's generalizability across various datasets. Our experimental analysis demonstrates our approach's superiority in accuracy and efficiency. In particular, we speed up the prior state-of-the-art by more than $100\times$ on the benchmark datasets while maintaining an error rate below $0.1\%$.

cs.LG↗

arXiv2024

How Small Can Faithful Sets Be? Ordering Topological Descriptors

Recent developments in shape reconstruction and comparison call for the use of many different (topological) descriptor types, such as persistence diagrams and Euler characteristic functions. We establish a framework to quantitatively compare the strength of different descriptor types, setting up a theory that allows for future comparisons and analysis of descriptor types and that can inform choices made in applications. We use this framework to partially order a set of six common descriptor types. We then give lower bounds on the size of sets of descriptors that uniquely correspond to simplicial complexes, giving insight into the advantages of using verbose rather than concise topological descriptors.

cs.CG↗

arXiv2024

Combinatorial Persistent Homology Transform

The combinatorial interpretation of the persistence diagram as a Möbius inversion was recently shown to be functorial. We employ this discovery to recast the Persistent Homology Transform of a geometric complex as a representation of a cellulation on $\mathbb{S}^n$ to the category of combinatorial persistence diagrams. Detailed examples are provided. We hope this recasting of the PH transform will allow for the adoption of existing methods from algebraic and topological combinatorics to the study of shapes.

math.AT↗

arXiv2024

The Manifold Density Function: An Intrinsic Method for the Validation of Manifold Learning

We introduce the manifold density function, which is an intrinsic method to validate manifold learning techniques. Our approach adapts and extends Ripley's $K$-function, and categorizes in an unsupervised setting the extent to which an output of a manifold learning algorithm captures the structure of a latent manifold. Our manifold density function generalizes to broad classes of Riemannian manifolds. In particular, we extend the manifold density function to general two-manifolds using the Gauss-Bonnet theorem, and demonstrate that the manifold density function for hypersurfaces is well approximated using the first Laplacian eigenvalue. We prove desirable convergence and robustness properties.

cs.LG↗

arXiv2024

A Faithful Discretization of the Verbose Persistent Homology Transform

The persistent homology transform (PHT) represents a shape with a multiset of persistence diagrams parameterized by the sphere of directions in the ambient space. In this work, we describe a finite set of diagrams that discretize the PHT such that it faithfully represents the underlying shape. We provide a discretization that is exponential in the dimension of the shape. Moreover, we show that this discretization is stable with respect to various perturbations and we provide an algorithm for computing the discretization. Our approach relies only on knowing the heights and dimensions of topological events, which means that it can be adapted to provide discretizations of other dimension-returning topological transforms, including the Betti function transform. With mild alterations, we also adapt our methods to faithfully discretize the Euler characteristic function transform.

cs.CG↗

arXiv2023

Visualizing Topological Importance: A Class-Driven Approach

This paper presents the first approach to visualize the importance of topological features that define classes of data. Topological features, with their ability to abstract the fundamental structure of complex data, are an integral component of visualization and analysis pipelines. Although not all topological features present in data are of equal importance. To date, the default definition of feature importance is often assumed and fixed. This work shows how proven explainable deep learning approaches can be adapted for use in topological classification. In doing so, it provides the first technique that illuminates what topological structures are important in each dataset in regards to their class label. In particular, the approach uses a learned metric classifier with a density estimator of the points of a persistence diagram as input. This metric learns how to reweigh this density such that classification accuracy is high. By extracting this weight, an importance field on persistent point density can be created. This provides an intuitive representation of persistence point importance that can be used to drive new visualizations. This work provides two examples: Visualization on each diagram directly and, in the case of sublevel set filtrations on images, directly on the images themselves. This work highlights real-world examples of this approach visualizing the important topological features in graph, 3D shape, and medical image data.

cs.LG↗

arXiv2023

From Curves to Words and Back Again: Geometric Computation of Minimum-Area Homotopy

Let $γ$ be a generic closed curve in the plane. Samuel Blank, in his 1967 Ph.D. thesis, determined if $γ$ is self-overlapping by geometrically constructing a combinatorial word from $γ$. More recently, Zipei Nie, in an unpublished manuscript, computed the minimum homotopy area of $γ$ by constructing a combinatorial word algebraically. We provide a unified framework for working with both words and determine the settings under which Blank's word and Nie's word are equivalent. Using this equivalence, we give a new geometric proof for the correctness of Nie's algorithm. Unlike previous work, our proof is constructive which allows us to naturally compute the actual homotopy that realizes the minimum area. Furthermore, we contribute to the theory of self-overlapping curves by providing the first polynomial-time algorithm to compute a self-overlapping decomposition of any closed curve $γ$ with minimum area.

cs.CG↗

arXiv2023

The Weighted Euler Characteristic Transform for Image Shape Classification

The weighted Euler characteristic transform (WECT) is a new tool for extracting shape information from data equipped with a weight function. Image data may benefit from the WECT where the intensity of the pixels are used to define the weight function. In this work, an empirical assessment of the WECT's ability to distinguish shapes on images with different pixel intensity distributions is considered, along with visualization techniques to improve the intuition and understanding of what is captured by the WECT. Additionally, the expected weighted Euler characteristic and the expected WECT are derived.

cs.CG↗

arXiv2022

Efficient Graph Reconstruction and Representation Using Augmented Persistence Diagrams

Persistent homology is a tool that can be employed to summarize the shape of data by quantifying homological features. When the data is an object in $\mathbb{R}^d$, the (augmented) persistent homology transform ((A)PHT) is a family of persistence diagrams, parameterized by directions in the ambient space. A recent advance in understanding the PHT used the framework of reconstruction in order to find finite a set of directions to faithfully represent the shape, a result that is of both theoretical and practical interest. In this paper, we improve upon this result and present an improved algorithm for graph -- and, more generally one-skeleton -- reconstruction. The improvement comes in reconstructing the edges, where we use a radial binary (multi-)search. The binary search employed takes advantage of the fact that the edges can be ordered radially with respect to a reference plane, a feature unique to graphs.

cs.CG↗

arXiv2022

On the Reconstruction of Geodesic Subspaces of $\mathbb{R}^N$

We consider the topological and geometric reconstruction of a geodesic subspace of $\mathbb{R}^N$ both from the Čech and Vietoris-Rips filtrations on a finite, Hausdorff-close, Euclidean sample. Our reconstruction technique leverages the intrinsic length metric induced by the geodesics on the subspace. We consider the distortion and convexity radius as our sampling parameters for a successful reconstruction. For a geodesic subspace with finite distortion and positive convexity radius, we guarantee a correct computation of its homotopy and homology groups from the sample. For geodesic subspaces of $\mathbb{R}^2$, we also devise an algorithm to output a homotopy equivalent geometric complex that has a very small Hausdorff distance to the unknown shape of interest.

math.AT↗

arXiv2022

Extremal Event Graphs: A (Stable) Tool for Analyzing Noisy Time Series Data

Local maxima and minima, or extremal events, in experimental time series can be used as a coarse summary to characterize data. However, the discrete sampling in recording experimental measurements suggests uncertainty on the true timing of extrema during the experiment. This in turn gives uncertainty in the timing order of extrema within the time series. Motivated by applications in genomic time series and biological network analysis, we construct a weighted directed acyclic graph (DAG) called an extremal event DAG using techniques from persistent homology that is robust to measurement noise. Furthermore, we define a distance between extremal event DAGs based on the edit distance between strings. We prove several properties including local stability for the extremal event DAG distance with respect to pairwise $L_{\infty}$ distances between functions in the time series data. Lastly, we provide algorithms, publicly free software, and implementations on extremal event DAG construction and comparison.

cs.DS↗

arXiv2022

Combinatorial Conditions for Directed Collapsing

The purpose of this article is to study directed collapsibility of directed Euclidean cubical complexes. One application of this is in the nontrivial task of verifying the execution of concurrent programs. The classical definition of collapsibility involves certain conditions on a pair of cubes of the complex. The direction of the space can be taken into account by requiring that the past links of vertices remain homotopy equivalent after collapsing. We call this type of collapse a link-preserving directed collapse. In this paper, we give combinatorially equivalent conditions for preserving the topology of the links, allowing for the implementation of an algorithm for collapsing a directed Euclidean cubical complex. Furthermore, we give conditions for when link-preserving directed collapses preserve the contractability and connectedness of directed path spaces, as well as examples when link-preserving directed collapses do not preserve the number of connected components of the path space between the minimum and a given vertex.

math.AT↗

arXiv2022

Differentiating small-scale subhalo distributions in CDM and WDM models using persistent homology

The spatial distribution of galaxies at sufficiently small scales will encode information about the identity of the dark matter. We develop a novel description of the halo distribution using persistent homology summaries, in which collections of points are decomposed into clusters, loops and voids. We apply these methods, together with a set of hypothesis tests, to dark matter haloes in MW-analog environment regions of the cold dark matter (CDM) and warm dark matter (WDM) Copernicus Complexio $N$-body cosmological simulations. The results of the hypothesis tests find statistically significant differences (p-values $\leq$ 0.001) between the CDM and WDM structures, and the functional summaries of persistence diagrams detect differences at scales that are distinct from the comparison spatial point process functional summaries considered (including the two-point correlation function). The differences between the models are driven most strongly at filtration scales $\sim100$~kpc, where CDM generates larger numbers of unconnected halo clusters while WDM instead generates loops. This study was conducted on dark matter haloes generally; future work will involve applying the same methods to realistic galaxy catalogues.

astro-ph.IM↗