readme.pcg2
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readme.pcg2 [2012/05/30 14:05] – shogo | readme.pcg2 [2016/10/21 22:17] – [Options] shogo | ||
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- | ====== BLUP90IOD2====== | + | ====== BLUP90IOD2 ====== |
- | \\ | + | |
- | The original program was written by Shogo Tsuruta in 1999. | + | |
- | ===== Summary===== | + | ===== Summary ===== |
- | BLUP90IOD2 is a BLUP program for solving a large number of mixed model equations, using preconditioned conjugate gradient (PCG). | + | The original program was written by Shogo Tsuruta in 1999. |
+ | \\ | ||
+ | BLUP90IOD2 is a BLUP program for solving a large number of mixed model equations, using preconditioned conjugate gradient (PCG). Another version for heterogeneous residual variances is also available. | ||
+ | \\ | ||
+ | See PREGSF90 with genotypes (SNP) for options. | ||
+ | \\ | ||
+ | Implementation of one-step genomic selection updating animal effects with the combined pedigree and genomic relationship matrix (H-Inverse). | ||
====== Options ====== | ====== Options ====== | ||
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Set the number of effects to be solved directly (default=0). | Set the number of effects to be solved directly (default=0). | ||
< | < | ||
- | OPTION solv_method | + | OPTION solv_method |
</ | </ | ||
Solving method for initial equations (default=DIRECT). | Solving method for initial equations (default=DIRECT). | ||
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To restart the program from the previous solutions. | To restart the program from the previous solutions. | ||
< | < | ||
- | OPTION missing -1 | + | OPTION missing -999 |
</ | </ | ||
- | Set the missing value (default 0). | + | Set the missing value (default 0) in integer. |
< | < | ||
OPTION restart 100 | OPTION restart 100 | ||
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OPTION random_upg 1 2 | OPTION random_upg 1 2 | ||
</ | </ | ||
- | Set the UPG random. " | + | Set the UPG random. " |
< | < | ||
- | OPTION SNP_file | + | OPTION SNP_file |
</ | </ | ||
- | implement one-step genomic selection updating animal effects with genomic relationship matrix (H-Inverse). | + | Specify the SNP file name to use genotype data. |
+ | \\ | ||
//For information on availability of BLUP90IOD, please contact Ignacy Misztal (ignacy@uga.edu) at the University of Georgia.// | //For information on availability of BLUP90IOD, please contact Ignacy Misztal (ignacy@uga.edu) at the University of Georgia.// | ||
readme.pcg2.txt · Last modified: 2024/05/16 14:16 by dani