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Sequence alignment algorithms are a basic and critical component of many bioinformatics fields. With rapid development of sequencing technology, the fast growing reference database volumes and longer length of query sequence become new…

Distributed, Parallel, and Cluster Computing · Computer Science 2017-01-09 Bo Xu , Changlong Li , Hang Zhuang , Jiali Wang , Qingfeng Wang , Jinhong Zhou , Xuehai Zhou

The correct interpretation of convolutional models is a hard problem for time series data. While saliency methods promise visual validation of predictions for image and language processing, they fall short when applied to time series. These…

Computer Vision and Pattern Recognition · Computer Science 2025-07-11 Christoffer Loeffler , Wei-Cheng Lai , Bjoern Eskofier , Dario Zanca , Lukas Schmidt , Christopher Mutschler

Computing the discrepancy between time series of variable sizes is notoriously challenging. While dynamic time warping (DTW) is popularly used for this purpose, it is not differentiable everywhere and is known to lead to bad local optima…

Machine Learning · Computer Science 2021-03-01 Mathieu Blondel , Arthur Mensch , Jean-Philippe Vert

Anomaly detection on multivariate time-series is of great importance in both data mining research and industrial applications. Recent approaches have achieved significant progress in this topic, but there is remaining limitations. One major…

Machine Learning · Computer Science 2020-09-07 Hang Zhao , Yujing Wang , Juanyong Duan , Congrui Huang , Defu Cao , Yunhai Tong , Bixiong Xu , Jing Bai , Jie Tong , Qi Zhang

Motivation: The multiple sequence alignment (MSA) problem has been extensively studied, with numerous approaches developed over recent years. With the rapid growth of sequence data, there is an increasing need for fast and accurate MSA…

Computational Engineering, Finance, and Science · Computer Science 2026-01-23 Emily G. Light , Morgan Prior , Noah M. Daniels , Najib Ishaq

Time series forecasting (TSF) has long been a crucial task in both industry and daily life. Most classical statistical models may have certain limitations when applied to practical scenarios in fields such as energy, healthcare, traffic,…

Machine Learning · Computer Science 2025-03-14 Xiangjie Kong , Zhenghao Chen , Weiyao Liu , Kaili Ning , Lechao Zhang , Syauqie Muhammad Marier , Yichen Liu , Yuhao Chen , Feng Xia

Time-series representation learning can extract representations from data with temporal dynamics and sparse labels. When labeled data are sparse but unlabeled data are abundant, contrastive learning, i.e., a framework to learn a latent…

Machine Learning · Computer Science 2023-03-03 Heejeong Choi , Pilsung Kang

Short fixed-length inputs are the main bottleneck of deep learning methods in long time-series forecasting tasks. Prolonging input length causes overfitting, rapidly deteriorating accuracy. Our research indicates that the overfitting is a…

Machine Learning · Computer Science 2025-09-05 Chao Ma , Yikai Hou , Xiang Li , Yinggang Sun , Haining Yu

Accurate and efficient multivariate time series (MTS) analysis is increasingly critical for a wide range of intelligent applications. Within this realm, Transformers have emerged as the predominant architecture due to their strong ability…

Machine Learning · Computer Science 2026-05-19 Rui An , Haohao Qu , Wenqi Fan , Xuequn Shang , Qing Li

Time Series Classification and Extrinsic Regression are important and challenging machine learning tasks. Deep learning has revolutionized natural language processing and computer vision and holds great promise in other fields such as time…

Machine Learning · Computer Science 2023-12-21 Navid Mohammadi Foumani , Lynn Miller , Chang Wei Tan , Geoffrey I. Webb , Germain Forestier , Mahsa Salehi

Sequence alignment is common nowadays as it is used in many fields to determine how closely two sequences are related and at times to see how little they differ. In computational biology / Bioinformatics, there are many algorithms developed…

Information Theory · Computer Science 2023-05-02 Bharath Reddy , Richard Fields

It is well understood that Dynamic Time Warping (DTW) is effective in revealing similarities between time series that do not align perfectly. In this paper, we illustrate this on spectroscopy time-series data. We show that DTW is effective…

Machine Learning · Computer Science 2020-10-13 Vivek Mahato , Pádraig Cunningham

We study time-series classification (TSC), a fundamental task of time-series data mining. Prior work has approached TSC from two major directions: (1) similarity-based methods that classify time-series based on the nearest neighbors, and…

Machine Learning · Computer Science 2022-01-07 Daochen Zha , Kwei-Herng Lai , Kaixiong Zhou , Xia Hu

Accurate forecasting of long-term time series has important applications for decision making and planning. However, it remains challenging to capture the long-term dependencies in time series data. To better extract long-term dependencies,…

Machine Learning · Computer Science 2024-05-15 Feifei Li , Suhan Guo , Feng Han , Jian Zhao , Furao Shen

Recently, there has been great success in leveraging pre-trained large language models (LLMs) for time series analysis. The core idea lies in effectively aligning the modality between natural language and time series. However, the…

Machine Learning · Computer Science 2026-03-03 Zongjiang Shang , Dongliang Cui , Binqing Wu , Ling Chen

The time series classification literature has expanded rapidly over the last decade, with many new classification approaches published each year. The research focus has mostly been on improving the accuracy and efficiency of classifiers,…

Machine Learning · Computer Science 2018-08-14 Thach Le Nguyen , Severin Gsponer , Iulia Ilie , Georgiana Ifrim

In this paper, we propose a machine learning approach for forecasting hierarchical time series. When dealing with hierarchical time series, apart from generating accurate forecasts, one needs to select a suitable method for producing…

Machine Learning · Computer Science 2021-07-12 Paolo Mancuso , Veronica Piccialli , Antonio M. Sudoso

Time Series Classification (TSC) is an important and challenging problem in data mining. With the increase of time series data availability, hundreds of TSC algorithms have been proposed. Among these methods, only a few have considered Deep…

Machine Learning · Computer Science 2019-05-15 Hassan Ismail Fawaz , Germain Forestier , Jonathan Weber , Lhassane Idoumghar , Pierre-Alain Muller

Medical time-series data captures the dynamic progression of patient conditions, playing a vital role in modern clinical decision support systems. However, real-world clinical data is highly heterogeneous and inconsistently formatted.…

Machine Learning · Computer Science 2026-04-01 Zhongheng Jiang , Yuechao Zhao , Donglin Xie , Chenxi Sun , Rongchen Lu , Silu Luo , Zisheng Liang , Shenda Hong

Dynamic time warping (DTW) plays an important role in analytics on time series. Despite the large body of research on speeding up univariate DTW, the method for multivariate DTW has not been improved much in the last two decades. The most…

Machine Learning · Computer Science 2021-01-21 Daniel Shen , Min Chi
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