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Biblioteca (s) : |
INIA Las Brujas. |
Fecha : |
26/11/2015 |
Actualizado : |
25/11/2019 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Autor : |
MASUDA, Y.; AGUILAR, I.; TSURUTA, S.; MISZTAL, I. |
Afiliación : |
Y. MASUDA, Universidad de Georgia (UG); Obihiro University of Agriculture and Veterinary Medicine (Japón); IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; SHOGO TSURUTA, Universidad de Georgia (UG); IGNACY MISZTAL, Universidad de Georgia (UG). |
Título : |
Technical note: Acceleration of sparse operations for average-information REML analyses with supernodal methods and sparse-storage refinements. |
Fecha de publicación : |
2015 |
Fuente / Imprenta : |
Journal of Animal Science, 2015, v. 93, p. 4670 - 4674. Published October 9, 2015 |
DOI : |
10.2527/jas.2015-9395 |
Idioma : |
Inglés |
Notas : |
Article history: Received June 8, 2015.; Accepted August 7, 2015.
1. We acknowledge the work by François Guillaume in programming a hash function. We greatly appreciate the work of the two anonymous reviewers.
2. The AIREMLF90 program with a sparse package YAMS, along with a manual, is available at http://nce.ads.uga.edu. The YAMS package is available on request for academic or noncommercial purposes by contacting the corresponding author. |
Contenido : |
ABSTRACT.
The objective of this study was to remove bottlenecks generally found in a computer program for average-information REML. The refinements included improvements to setting-up mixed-model equations on a hash table with a faster hash function as sparse matrix storage, changing sparse structures in calculation of traces, and replacing a sparse matrix
package using traditional methods (FSPAK) with a new package using supernodal methods (YAMS); the latter package quickly processed sparse matrices containing large, dense blocks. Comparisons included 23 models with data sets from broiler, swine, beef, and dairy cattle. Models included single-trait, multiple-trait, maternal, and random regression models with phenotypic data; selected models used genomic information in a singlestep approach. Setting-up mixed model equations was completed without abnormal termination in all analyses. Calculations in traces were accelerated with a hash format, especially for models with a genomic relationship matrix, and the maximum speed was 67 times faster. Computations with YAMS were, on average, more than 10 times faster than with FSPAK and had greater advantages for large data and more complicated models including multiple traits, random regressions, and genomic effects. These refinements can be applied to general average-information REML programs.
© 2015 American Society of Animal Science. All rights reserved. |
Palabras claves : |
AVERAGE-INFORMATION REML; HASH FORMAT; SPARSE MATRIX; SPARSE PACKAGES. |
Thesagro : |
MODELOS DE SIMULACIÓN. |
Asunto categoría : |
L10 Genética y mejoramiento animal |
Marc : |
LEADER 02649naa a2200241 a 4500 001 1054007 005 2019-11-25 008 2015 bl uuuu u00u1 u #d 024 7 $a10.2527/jas.2015-9395$2DOI 100 1 $aMASUDA, Y. 245 $aTechnical note$bAcceleration of sparse operations for average-information REML analyses with supernodal methods and sparse-storage refinements.$h[electronic resource] 260 $c2015 500 $aArticle history: Received June 8, 2015.; Accepted August 7, 2015. 1. We acknowledge the work by François Guillaume in programming a hash function. We greatly appreciate the work of the two anonymous reviewers. 2. The AIREMLF90 program with a sparse package YAMS, along with a manual, is available at http://nce.ads.uga.edu. The YAMS package is available on request for academic or noncommercial purposes by contacting the corresponding author. 520 $aABSTRACT. The objective of this study was to remove bottlenecks generally found in a computer program for average-information REML. The refinements included improvements to setting-up mixed-model equations on a hash table with a faster hash function as sparse matrix storage, changing sparse structures in calculation of traces, and replacing a sparse matrix package using traditional methods (FSPAK) with a new package using supernodal methods (YAMS); the latter package quickly processed sparse matrices containing large, dense blocks. Comparisons included 23 models with data sets from broiler, swine, beef, and dairy cattle. Models included single-trait, multiple-trait, maternal, and random regression models with phenotypic data; selected models used genomic information in a singlestep approach. Setting-up mixed model equations was completed without abnormal termination in all analyses. Calculations in traces were accelerated with a hash format, especially for models with a genomic relationship matrix, and the maximum speed was 67 times faster. Computations with YAMS were, on average, more than 10 times faster than with FSPAK and had greater advantages for large data and more complicated models including multiple traits, random regressions, and genomic effects. These refinements can be applied to general average-information REML programs. © 2015 American Society of Animal Science. All rights reserved. 650 $aMODELOS DE SIMULACIÓN 653 $aAVERAGE-INFORMATION REML 653 $aHASH FORMAT 653 $aSPARSE MATRIX 653 $aSPARSE PACKAGES 700 1 $aAGUILAR, I. 700 1 $aTSURUTA, S. 700 1 $aMISZTAL, I. 773 $tJournal of Animal Science, 2015$gv. 93, p. 4670 - 4674. Published October 9, 2015
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Registro completo
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Biblioteca (s) : |
INIA Las Brujas; INIA Tacuarembó. |
Fecha actual : |
15/07/2015 |
Actualizado : |
15/10/2019 |
Tipo de producción científica : |
Revista INIA |
Autor : |
INIA (INSTITUTO NACIONAL DE INVESTIGACIÓN AGROPECUARIA) |
Título : |
Revista INIA Uruguay. (No.11, Junio 2007). |
Fecha de publicación : |
2007 |
Fuente / Imprenta : |
Montevideo (Uruguay): INIA, 2007. |
Páginas : |
48 p. |
Serie : |
(Revista INIA; 11) |
ISSN : |
1510-9011 |
Idioma : |
Español |
Thesagro : |
ARROZ; BIOTECNOLOGIA; BOVINOS DE CARNE; CAMBIO CLIMÁTICO; CIENCIA; CITRUS; CLIMA; CLIMATOLOGIA; COMUNICACIÓN; CONTROL DE ENFERMEDADES; CULTIVOS DE GRANO; CULTIVOS DE SECANO; ENTOMOLOGIA; ESPECIES FORRAJERAS; EUCALYPTUS; EXPLOTACION AGRICOLA FAMILIAR; FITOPATOLOGÍA; FORESTALES; FORRAJES; FRUTALES; FRUTICULTURA; GANADO BOVINO; GRANOS; GRAS; HORTALIZAS; HORTICULTURA; INIA; INNOVACION; INVESTIGACIÓN; LECHERÍA; LEGUMINOSAS FORRAJERAS; MANEJO DEL CULTIVO; MEJORAMIENTO ANIMAL; METEOROLOGIA; MICROBIOLOGÍA; OVINOS; PASTURAS; PRODUCCIÓN ANIMAL; PRODUCCION DE LANA; PRODUCCION DE LECHE; PRODUCCION LECHERA; REVISTA INIA 2007; SEMILLAS; SOJA; SUELOS; SUINOS; SUSTENTABILIDAD AMBIENTAL; TECNOLOGÍA; TRANSFERENCIA DE TECNOLOGIA; VARIEDADES; VITICULTURA. |
Asunto categoría : |
A50 Investigación agraria |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/4829/1/Revista-INIA-11.pdf
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Marc : |
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