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Despite the remarkable accuracies attained by machine learning classifiers to separate complex datasets in a supervised fashion, most of their operation falls short to provide an informed intuition about the structure of data, and, what is…

Machine Learning · Computer Science 2023-03-09 Aina Ferrà , Gloria Cecchini , Fritz-Pere Nobbe Fisas , Carles Casacuberta , Ignasi Cos

Spatial transcriptomics studies are becoming increasingly large and commonplace, necessitating simultaneous analysis of a large number of spatially resolved variables. Correspondingly, a diverse range of methodologies have been proposed to…

Quantitative Methods · Quantitative Biology 2025-09-09 James Boyle , Gregory Hamm , Eleanor Williams , Robin JG Hartman , Magnus Soderburg , Ian Henry , Michael Casey

Developing reliable methods to discriminate different transient brain states that change over time is a key neuroscientific challenge in brain imaging studies. Topological data analysis (TDA), a novel framework based on algebraic topology,…

Neurons and Cognition · Quantitative Biology 2023-12-19 Moo K. Chung , Soumya Das , Hernando Ombao

Deep neural networks (DNNs) are vulnerable to shortcut learning: rather than learning the intended task, they tend to draw inconclusive relationships between their inputs and outputs. Shortcut learning is ubiquitous among many failure cases…

Machine Learning · Computer Science 2024-08-27 Hadi M. Dolatabadi , Sarah M. Erfani , Christopher Leckie

Knot theory provides a powerful tool for the understanding of topological matters in biology, chemistry, and physics. Here knot theory is introduced to describe topological phases in the quantum spin system. Exactly solvable models with…

Strongly Correlated Electrons · Physics 2019-06-24 X. M. Yang , L. Jin , Z. Song

We develop a method for analyzing spatial and spatiotemporal anomalies in geospatial data using topological data analysis (TDA). To do this, we use persistent homology (PH), which allows one to algorithmically detect geometric voids in a…

Physics and Society · Physics 2022-03-01 Abigail Hickok , Deanna Needell , Mason A. Porter

The intrinsic connection between lattice theory and topology is fairly well established, For instance, the collection of open subsets of a topological subspace always forms a distributive lattice. Persistent homology has been one of the…

Rings and Algebras · Mathematics 2014-02-03 Primož Škraba , João Pita Costa

Most CAD or other spatial data models, in particular boundary representation models, are called "topological" and represent spatial data by a structured collection of "topological primitives" like edges, vertices, faces, and volumes. These…

Computational Geometry · Computer Science 2013-08-02 Norbert Paul

We study the persistent homology of both functional data on compact topological spaces and structural data presented as compact metric measure spaces. One of our goals is to define persistent homology so as to capture primarily properties…

Algebraic Topology · Mathematics 2018-11-27 Haibin Hang , Facundo Mémoli , Washington Mio

Topological data analysis leverages topological features to analyze datasets, with applications in diverse fields like medical sciences and biology. A key tool of this theory is the persistence diagram, which encodes topological information…

Algebraic Topology · Mathematics 2024-10-22 Michael Etienne Van Huffel , Olympio Hacquard , Vadim Lebovici , Matteo Palo

We set the foundations for a new approach to Topological Data Analysis (TDA) based on homotopical methods at chain complexes level. We present the category of tame parametrised chain complexes as a comprehensive environment that includes…

Algebraic Topology · Mathematics 2020-11-17 Wojciech Chachólski , Barbara Giunti , Claudia Landi

Construction of (colored) knot polynomials for double-fat graphs is further generalized to the case when "fingers" and "propagators" are substituting R-matrices in arbitrary closed braids with m-strands. Original version of arXiv:1504.00371…

High Energy Physics - Theory · Physics 2015-08-31 A. Mironov , A. Morozov

Topological data analysis (TDA) is a versatile tool that can be used to extract scientific knowledge from complex pattern formation processes. However, the physics correspondence between the features obtained from TDA and pattern dynamics…

Pattern Formation and Solitons · Physics 2024-07-09 Yoh-ichi Mototake , Masaichiro Mizumaki , Kazue Kudo , Kenji Fukumizu

In semiconductor manufacturing, wafer map defect pattern provides critical information for facility maintenance and yield management, so the classification of defect patterns is one of the most important tasks in the manufacturing process.…

Machine Learning · Computer Science 2022-09-20 Seungchan Ko , Dowan Koo

In this paper, we address one of the most basic and fundamental problems in the theory of foliations and ODEs, the topological invariance of the algebraic multiplicity of a holomorphic foliation. For instance, we prove an adapted version of…

Complex Variables · Mathematics 2024-11-05 Leonardo M. Câmara , Fernando Reis , José Edson Sampaio

The initial motivation of this work was to give a topological interpretation of two-periodic twisted de-Rham cohomology which is generalizable to arbitrary coefficients. To this end we develop a sheaf theory in the context of locally…

Algebraic Topology · Mathematics 2012-10-12 Ulrich Bunke , Markus Spitzweck , Thomas Schick

Combinatorial and topological structures, such as graphs, simplicial complexes, and cell complexes, form the foundation of geometric and topological deep learning (GDL and TDL) architectures. These models aggregate signals over such…

Machine Learning · Computer Science 2026-05-28 Chuan-Shen Hu

Persistent homology has been widely used to discover hidden topological structures in data across various applications, including music data. To apply persistent homology, a distance or metric must be defined between points in a point cloud…

Sound · Computer Science 2025-12-15 Eunwoo Heo , Byeongchan Choi , Myung ock Kim , Mai Lan Tran , Jae-Hun Jung

This is a draft of a book submitted for publication by the AMS. Its theme is the remarkable interplay, accelerating in the last few decades, between topology and the theory of orderable groups, with applications in both directions. It…

Geometric Topology · Mathematics 2015-11-17 Adam Clay , Dale Rolfsen

Although two-dimensional periodic structures have functioned as the primary platform for exploring topological phenomena, recent advances have substantially expanded this research boundary to include more intricate, aperiodic structures:…

Mesoscale and Nanoscale Physics · Physics 2026-03-12 Sunkyu Yu , Xianji Piao , Namkyoo Park