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| 1. |  | KOLMER, J.A.; HERMAN, A.; ORDOÑEZ, M.E.; GERMAN, S.; MORGOUNOV, A.; PRETORIUS, Z.; VISSER, B.; ANISKSTER, Y.; ACEVEDO, M. Endemic and panglobal genetic groups, and divergence of host-associated forms in worldwide collections of the wheat leaf rust fungus Puccinia triticina as determined by genotyping by sequencing. Heredity, 1 March 2020, Volume 124, Issue 3, Pages 397-409. Doi: https://doi.org/10.1038/s41437-019-0288-x Article history: Received: 5 September 2019 / Revised: 3 December 2019 / Accepted: 3 December 2019 / Published online: 20 December 2019.
Supplementary information The online version of this article...| Biblioteca(s): INIA Las Brujas. |
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 | Acceso al texto completo restringido a Biblioteca INIA Las Brujas. Por información adicional contacte bibliolb@inia.org.uy. |
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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha actual : |
26/11/2015 |
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Actualizado : |
25/11/2019 |
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Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
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Circulación / Nivel : |
Internacional - -- |
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Autor : |
MASUDA, Y.; AGUILAR, I.; TSURUTA, S.; MISZTAL, I. |
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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). |
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Título : |
Technical note: Acceleration of sparse operations for average-information REML analyses with supernodal methods and sparse-storage refinements. |
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Fecha de publicación : |
2015 |
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Fuente / Imprenta : |
Journal of Animal Science, 2015, v. 93, p. 4670 - 4674. Published October 9, 2015 |
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DOI : |
10.2527/jas.2015-9395 |
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Idioma : |
Inglés |
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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. |
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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. |
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Palabras claves : |
AVERAGE-INFORMATION REML; HASH FORMAT; SPARSE MATRIX; SPARSE PACKAGES. |
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Thesagro : |
MODELOS DE SIMULACIÓN. |
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Asunto categoría : |
L10 Genética y mejoramiento animal |
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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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