• Scalable PGAS collective operations in NUMA clusters 

      Mallón, Damián A.; Teijeiro Barjas, Carlos; González-Domínguez, Jorge; Taboada, Guillermo L.; Gómez, Andrés (Springer New York LLC, 2014-12)
      [Abstract] The increasing number of cores per processor is turning manycore-based systems in pervasive. This involves dealing with multiple levels of memory in non uniform memory access (NUMA) systems and processor cores ...
    • ScalaParBiBit: Scaling the Binary Biclustering in Distributed-Memory Systems 

      Fraguela, Basilio B.; Andrade, Diego; González-Domínguez, Jorge (SpringerLink, 2021-03-19)
      [Abstract] Biclustering is a data mining technique that allows us to find groups of rows and columns that are highly correlated in a 2D dataset. Although there exist several software applications to perform biclustering, ...
    • Self-Organized Multi-Camera Network for a Fast and Easy Deployment of Ubiquitous Robots in Unknown Environments 

      Canedo-Rodríguez, Adrián; Iglesias, Roberto; Regueiro, Carlos V.; Álvarez-Santos, Víctor; Pardo, Xosé Manuel (Multidisciplinary Digital Publishing Institute, 2013)
      To bring cutting edge robotics from research centres to social environments, the robotics community must start providing affordable solutions: the costs must be reduced and the quality and usefulness of the robot services ...
    • SeQual-Stream: approaching stream processing to quality control of NGS datasets 

      Castellanos Rodríguez, Óscar; Expósito, Roberto R.; Touriño, Juan (BMC, 2023-10)
      [Abstract]: Background Quality control of DNA sequences is an important data preprocessing step in many genomic analyses. However, all existing parallel tools for this purpose are based on a batch processing model, ...
    • SeQual: Big Data Tool to Perform Quality Control and Data Preprocessing of Large NGS Datasets 

      Expósito, Roberto R.; Galego Torreiro, Roi; González-Domínguez, Jorge (Institute of Electrical and Electronics Engineers, 2020-08-07)
      [Abstract] This paper presents SeQual, a scalable tool to efficiently perform quality control of large genomic datasets. Our tool currently supports more than 30 different operations (e.g., filtering, trimming, formatting) ...
    • Serverless-like platform for container-based YARN clusters 

      Castellanos Rodríguez, Óscar; Expósito, Roberto R.; Enes, Jonatan; Taboada, Guillermo L.; Touriño, Juan (Elsevier, 2024-06)
      [Abstract]: Serverless computing is an emerging paradigm that has gained a lot of relevance in recent years, as it allows users to consume computing resources without worrying about the underlying infrastructure and pay ...
    • Servet: A Benchmark Suite for Autotuning on Multicore Clusters 

      González-Domínguez, Jorge; Taboada, Guillermo L.; Fraguela, Basilio B.; Martín, María J.; Touriño, Juan (Institute of Electrical and Electronics Engineers, 2010-05-24)
      [Abstract] MapReduce is a powerful tool for processing large data sets used by many applications running in distributed environments. However, despite the increasing number of computationally intensive problems that require ...
    • SMusket: Spark-based DNA error correction on distributed-memory systems 

      Expósito, Roberto R.; González-Domínguez, Jorge; Touriño, Juan (Elsevier B.V., 2020)
      [Abstract]: Next-Generation Sequencing (NGS) technologies have revolutionized genomics research over the last decade, bringing new opportunities for scientists to perform groundbreaking biological studies. Error correction ...
    • Solving Large Problem Sizes of Index-Digit Algorithms on GPU: FFT and Tridiagonal System Solvers 

      Pérez Diéguez, Adrián; Amor, Margarita; Lobeiras Blanco, Jacobo; Doallo, Ramón (Institute of Electrical and Electronics Engineers, 2018)
      [Abstract] Current Graphics Processing Units (GPUs) are capable of obtaining high computational performance in scientific applications. Nevertheless, programmers have to use suitable parallel algorithms for these architectures ...
    • Spark Implementation of the Enhanced Scatter Search Metaheuristic: Methodology and Assessment 

      Pardo, Xoán C.; Argüeso-Alejandro, Pablo; González, Patricia; Banga, Julio R.; Doallo, Ramón (Elsevier BV, 2020-12)
      [Abstract] Optimization problems arise nowadays in all disciplines, not only in the scientific area but also in the field of engineering or economics, and in many others. Currently, challenging optimization problems require ...
    • SparkEC: speeding up alignment-based DNA error correction tools 

      Expósito, Roberto R.; Martínez-Sánchez, Marco; Touriño, Juan (BioMed Central (Springer), 2022)
      [Abstract]: In recent years, huge improvements have been made in the context of sequencing genomic data under what is called Next Generation Sequencing (NGS). However, the DNA reads generated by current NGS platforms are ...
    • Sparse Givens QR Factorization on a Multiprocessor 

      Touriño, Juan; Doallo, Ramón; Zapata, E.L. (IEEE Computer Society, 1996-06-01)
      [Abstract] We present a parallel algorithm for the QR factorization with column pivoting of a sparse matrix by means of Givens rotations. Nonzero elements of the matrix M to be decomposed are stored in a one dimensional ...
    • Sparse Householder QR factorization on a mesh 

      Doallo, Ramón; Touriño, Juan; Zapata, Emilio L. (IEEE Computer Society, 1996-01)
      [Abstract] We analyze the parallelization of QR factorization by means of Householder transformations. This parallelization is carried out on a machine with a mesh topology (a 2-D torus to be more precise). We use a cyclic ...
    • Speed and accuracy improvement of higher-order epistasis detection on CUDA-enabled GPUs 

      Jünger, Daniel; Hundt, Christian; González-Domínguez, Jorge; Schmidt, Bertil (Springer, 2017)
      [Abstract]: The discovery of higher-order epistatic interactions is an important task in the field of genome wide association studies which allows for the identification of complex interaction patterns between multiple ...
    • Supporting multi-resolution out-of-core rendering of massive LiDAR point clouds through non-redundant data structures 

      Deibe, David; Amor, Margarita; Doallo, Ramón (Taylor & Francis Group, 2019-03)
      [Abstract]: In recent years, the evolution and improvement of LiDAR (Light Detection and Ranging) hardware has increased the quality and quantity of the gathered data, making the storage, processing and management thereof ...
    • Synthesis of Multiresolution Scenes with Global Illumination on a GPU 

      Concheiro, Raquel; Amor, Margarita; Bóo, Montserrat; Iglesias, Iago; Padrón, Emilio J.; Doallo, Ramón (SciTePress, 2012-02)
      [Abstract] The radiosity computation has the important feature of producing view independent results, but these results are mesh dependent and, in consequence, are attached to a specific level of detail in the input mesh. ...
    • Texture Mapping on NURBS Surface 

      Vázquez Pardo, Sergio; Amor, Margarita (M D P I AG, 2018-09-17)
      [Abstract] Texture mapping allows high resolution details over 3D surfaces. Nevertheless, texture mapping has a number of unresolved problems such as distortion, boundary between textures or filtering. On the other hand, ...
    • The HPS3 Service: Reduction of Cost and Transfer Time for Storing Data on Clouds 

      Veiga, Jorge; Taboada, Guillermo L.; Pardo, Xoán C.; Touriño, Juan (IEEE Computer Society, 2015-03-12)
      [Abstract] In the past several years, organizations have been changing their storage methods as the volume of data they managed has increased. The cloud computing paradigm offers new ways of storing data based on scalability ...
    • The New UPC++ DepSpawn High Performance Library for Data-Flow Computing with Hybrid Parallelism 

      Fraguela, Basilio B.; Andrade, Diego (Springer, 2022)
      [Abstract] Data-flow computing is a natural and convenient paradigm for expressing parallelism. This is particularly true for tools that automatically extract the data dependencies among the tasks while allowing to exploit ...
    • The Phylogenetic Likelihood Library 

      Flouri, Tomas; Izquierdo-Carrasco, F.; Darriba, Diego; Aberer, Andre J.; Nguyen, Lam-Tung; Minh, B.Q.; Haeseler, Arndt von; Stamatakis, Alexandros (Oxford University Press, 2015-03-01)
      [Abstract] We introduce the Phylogenetic Likelihood Library (PLL), a highly optimized application programming interface for developing likelihood-based phylogenetic inference and postanalysis software. The PLL implements ...