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Listar por autor "González-Navarro, Sonia"
Mostrando ítems 1-12 de 12
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Accelerating Sequence Alignments Based on FM-Index Using the Intel KNL Processor
Herruzo-Ruiz, José Manuel; González-Navarro, Sonia; Ibáñez, Pablo; Viñals, Victor; Alastruey-Benedé, Jesús; Óscar, Plata[et al.] (IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS,, 2020-07-01)FM-index is a compact data structure suitable for fast matches of short reads to large reference genomes. The matching algorithm using this index exhibits irregular memory access patterns that cause frequent cache misses, ... -
Boosting Backward Search Throughput for FM-Index Using a Compressed Encoding
Herruzo-Ruiz, José Manuel; González-Navarro, Sonia; Ibáñez, Pablo; Viñals, Victor; Alastruey-Benedé, Jesús; Plata-González, Óscar Guillermo[et al.] (2019-04-11)The rapid development of DNA sequencing technologies has demanded for com- pressed data structures supporting fast pattern matching queries. FM-index is a widely-used compressed data structure that also supports fast ... -
Enabling Fast and Energy-Efficient FM-index Exact Matching using Processing-Near-Memory
Herruzo-Ruiz, José Manuel; Fernández, Iván; González-Navarro, Sonia; Óscar, Plata (Springer, 2021-09)Memory bandwidth and latency constitutes a major performance bottleneck for many data-intensive applications. While high-locality access patterns take advantage of the deep cache hierarchies available in modern processors, ... -
Fast HUB Floating-point Adder for FPGA
Villalba-Moreno, Julio; Hormigo-Aguilar, Javier; González-Navarro, Sonia (2018-10-17)Several previous publications have shown the area and delay reduction when implementing real number computation using HUB formats for both floating-point and fixed-point. In this paper, we present a HUB floating-point ... -
Genome Sequence Alignment - Design Space Exploration for Optimal Performance and Energy Architectures
Qureshi, Yasir Mahmood; Herruzo-Ruiz, José Manuel; Zapater, Marina; Olcoz, Katzalin; González-Navarro, Sonia; Óscar, Plata; Atienza, David[et al.] (IEEE Transactions on Computers, 2021-12)Next generation workloads, such as genome sequencing, have an astounding impact in the healthcare sector. Sequence alignment, the first step in genome sequencing, has experienced recent breakthroughs, which resulted in ... -
Genome sequence alignment in processing-In-memory architectures
Herruzo-Ruiz, José Manuel (UMA Editorial, 2021-01-27)La combinación de la aparición de un cuello de botella en el acceso a los datos y la creciente importancia de las aplicaciones de procesamiento intensivo de datos, muy limitadas por el sistema de memoria, crea un importante ... -
New Results on Non-normalized Floating-point Formats
González-Navarro, Sonia; Hormigo-Aguilar, Javier (IEEE Computer Society, 2019)Compulsory normalization of the represented numbers is a key requirement of the floating-point standard. This requirement contributes to fundamental characteristics of the standard, such as taking the most of the precision ... -
Normalizing or not normalizing? An open question for floating-point arithmetic in embedded systems
González-Navarro, Sonia; Hormigo-Aguilar, Javier (IEEE, 2017-07-24)Emerging embedded applications lack of a specific standard when they require floating-point arithmetic. In this situation they use the IEEE-754 standard or ad hoc variations of it. However, this standard was not designed ... -
TraTSA: A Transprecision Framework for Efficient Time Series Analysis
Fernández-Vega, Iván; Quislant-del-Barrio, Ricardo; González-Navarro, Sonia; Gutiérrez-Carrasco, Eladio Damián; Plata-González, Óscar Guillermo (Elsevier, 2022-09)Time series analysis (TSA) comprises methods for extracting information in domains as diverse as medicine, seismology, speech recognition and economics. Matrix Profile (MP) is the state-of-the-art TSA technique, which ... -
Unbiased Rounding for HUB Floating-point Addition
Villalba-Moreno, Julio; Hormigo-Aguilar, Javier; González-Navarro, Sonia (2018-06-28)Half-Unit-Biased (HUB) is an emerging format based on shifting the represented numbers by half Unit in the Last Place. This format simplifies two’s complement and roundto- nearest operations by preventing any carry ... -
Variable radix online decimal arithmetic
García Vega, Carlos (UMA Editorial, 2017-06-30)En esta tesis se estudia la unión de la aritmética decimal y la artimética online para obtener un sistema online para operar con dígitos decimales usando la codificación RBCD que cumple con los requisitos de ambas aritméticas. ...