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Aligning sequencing reads on graph representations of genomes is an important ingredient of pan-genomics. Such approaches typically find a set of local anchors that indicate plausible matches between substrings of a read to subpaths of the…

Data Structures and Algorithms · Computer Science 2018-01-30 Anna Kuosmanen , Topi Paavilainen , Travis Gagie , Rayan Chikhi , Alexandru I. Tomescu , Veli Mäkinen

The combinatorial search space presents a significant challenge to learning causality from data. Recently, the problem has been formulated into a continuous optimization framework with an acyclicity constraint, allowing for the exploration…

Machine Learning · Computer Science 2022-04-04 Hristo Petkov , Colin Hanley , Feng Dong

Retrieval-Augmented Generation (RAG) compensates for the static knowledge limitations of Large Language Models (LLMs) by integrating external knowledge, producing responses with enhanced factual correctness and query-specific…

Computation and Language · Computer Science 2025-05-21 Ruobing Yao , Yifei Zhang , Shuang Song , Neng Gao , Chenyang Tu

Learning the structure of directed acyclic graphs (DAGs) from observational data is a central problem in causal discovery, statistical signal processing, and machine learning. Under a linear Gaussian structural equation model (SEM) with…

Machine Learning · Computer Science 2026-05-27 Hamed Ajorlou , Samuel Rey , Gonzalo Mateos , Geert Leus , Antonio G. Marques

Quantum computing is a popular topic in computer science, which has recently attracted many studies in various areas such as machine learning and network. However, the topic of quantum data structures seems neglected. There is an open…

Databases · Computer Science 2024-06-03 Hao Liu , Xiaotian You , Raymond Chi-Wing Wong

We present a scalable approach for range and $k$ nearest neighbor queries under computationally expensive metrics, like the continuous Fr\'echet distance on trajectory data. Based on clustering for metric indexes, we obtain a dynamic tree…

Computational Geometry · Computer Science 2021-12-14 Joachim Gudmundsson , Michael Horton , John Pfeifer , Martin P. Seybold

We initiate a study of a query-driven approach to designing partition trees for range-searching problems. Our model assumes that a data structure is to be built for an unknown query distribution that we can access through a sampling oracle,…

Data Structures and Algorithms · Computer Science 2025-02-20 Dimitris Fotakis , Andreas Kalavas , Ioannis Psarros

Retrieval-augmented generation (RAG) is a powerful technique that enhances downstream task execution by retrieving additional information, such as knowledge, skills, and tools from external sources. Graph, by its intrinsic "nodes connected…

Approximate nearest neighbor (ANN) search with range filters has recently garnered significant attention. This paper delves into a generalized form of this problem, i.e., ANN search with exact range-range (RR) predicates on a range-valued…

Databases · Computer Science 2026-05-27 Yingfan Liu , Tong Wu , Jiadong Xie , Yang Zhao , Jeffrey Xu Yu , Jiangtao Cui

Retrieval Augmented Generation (RAG) frameworks improve the accuracy of large language models (LLMs) by integrating external knowledge from retrieved documents, thereby overcoming the limitations of models' static intrinsic knowledge.…

Information Retrieval · Computer Science 2025-09-19 Jingjie Zheng , Aryo Pradipta Gema , Giwon Hong , Xuanli He , Pasquale Minervini , Youcheng Sun , Qiongkai Xu

We define and study analogs of probabilistic tree embedding and tree cover for directed graphs. We define the notion of a DAG cover of a general directed graph $G$: a small collection $D_1,\dots D_g$ of DAGs so that for all pairs of…

Data Structures and Algorithms · Computer Science 2025-04-16 Sepehr Assadi , Gary Hoppenworth , Nicole Wein

Retrieval-Augmented Generation (RAG) has been proposed to mitigate hallucinations in large language models (LLMs), where generated outputs may be factually incorrect. However, existing RAG approaches predominantly rely on vector similarity…

Information Retrieval · Computer Science 2026-04-28 Miao Xie , Xiao Zhang , Yi Li , Chunli Lv

Agentic retrieval-augmented generation (RAG) systems enable large language models (LLMs) to solve complex tasks through multi-step interaction with external retrieval tools. However, such multi-step interaction often involves redundant…

Artificial Intelligence · Computer Science 2026-04-21 Jingbo Sun , Wenyue Chong , Songjun Tu , Qichao Zhang , Yaocheng Zhang , Jiajun Chai , Xiaohan Wang , Wei Lin , Guojun Yin , Dongbin Zhao

Learning graphical conditional independence structures is an important machine learning problem and a cornerstone of causal discovery. However, the accuracy and execution time of learning algorithms generally struggle to scale to problems…

Machine Learning · Computer Science 2023-10-30 Bryan Andrews , Joseph Ramsey , Ruben Sanchez-Romero , Jazmin Camchong , Erich Kummerfeld

Retrieval-Augmented Generation (RAG) grounds large language model outputs in external evidence, but remains challenged on multi-hop question answering that requires long reasoning. Recent works scale RAG at inference time along two…

This work aims to learn the directed acyclic graph (DAG) that captures the instantaneous dependencies underlying a multivariate time series. The observed data follow a linear structural vector autoregressive model (SVARM) with both…

Signal Processing · Electrical Eng. & Systems 2025-12-09 Samuel Rey , Gonzalo Mateos

Approximate k-Nearest Neighbour (ANN) methods are often used for mining information and aiding machine learning on large scale high-dimensional datasets. ANN methods typically differ in the index structure used for accelerating searches,…

Machine Learning · Computer Science 2025-02-04 Ben Harwood , Amir Dezfouli , Iadine Chades , Conrad Sanderson

Retrieval-Augmented Generation (RAG) is a powerful technique for enhancing Large Language Models (LLMs) with external, up-to-date knowledge. Graph RAG has emerged as an advanced paradigm that leverages graph-based knowledge structures to…

Cryptography and Security · Computer Science 2025-08-26 Jiale Liu , Jiahao Zhang , Suhang Wang

Directed acyclic graphical (DAG) models are a powerful tool for representing causal relationships among jointly distributed random variables, especially concerning data from across different experimental settings. However, it is not always…

Machine Learning · Statistics 2026-04-03 Francisco Madaleno , Pratik Misra , Alex Markham

Establishing the correspondences between newly acquired points and historically accumulated data (i.e., map) through nearest neighbors search is crucial in numerous robotic applications. However, static tree data structures are inadequate…

Robotics · Computer Science 2024-03-01 Jun Zhu , Hongyi Li , Zhepeng Wang , Shengjie Wang , Tao Zhang