Fecha/hora: 16/06/2024 00:14:18

Biblioteca(s): | INIA Las Brujas.
Fecha corriente: | 04/10/2014
Fecha de la última actualización: | 10/02/2020
Autoria: | AGUILAR, I.; MISZTAL, I.; LEGARRA, A.; TSURUTA, S.
Afiliación: | IGNACIO AGUILAR GARCIA, Instituto Nacional de Investigación Agropecuaria (INIA), Uruguay.
Título: | Efficient computation of the genomic relationship matrix and other matrices used in single-step evaluation.
Año de publicación: | 2011
Fuente/Imprenta: | Journal of Animal Breeding and Genetics, 2011, v.128, no.6, p.422-428.
ISSN: | 0931-2668
DOI: | 10.1111/j.1439-0388.2010.00912.x
Idioma: | Inglés

Contenido:

ABSTRACT.

Genomic evaluations can be calculated using a unified procedure that combines phenotypic, pedigree and genomic information. Implementation of such a procedure requires the inverse of the relationship matrix based on pedigree and genomic relationships. The objective of this study was to investigate efficient computing options to create relationship matrices based on genomic markers and pedigree information as well as their inverses. SNP maker information was simulated for a panel of 40K SNPs, with the number of genotyped animals up to 30000. Matrix multiplication in the computation of the genomic relationship was by a simple 'do' loop, by two optimized versions of the loop, and by a specific matrix multiplication subroutine. Inversion was by a generalized inverse algorithm and by a LAPACK subroutine. With the most efficient choices and parallel processing, creation of matrices for 30000 animals would take a few hours. Matrices required to implement a unified approach can be computed efficiently. Optimizations can be either by modifications of existing code or by the use of efficient automatic optimizations provided by open source or third-party libraries. 
© 2011 Blackwell Verlag GmbH.

Thesagro: | MEJORAMIENTO GENÉTICO ANIMAL; MODELOS MATEMÁTICOS; SELECCIÓN GENÓMICA.
Categoría del tema: | L10 Genética y mejoramiento animal
Registro original: | INIA Las Brujas (LB)
Ejemplares: | LB - (100167-1) - PXI - AP - DD - PP/JR.ANIM.BREED./GENETICS/2011 -  -  - DIS