readme.gibbs2
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| readme.gibbs2 [2012/08/17 15:06] – [Running] ignacio | readme.gibbs2 [2016/09/30 19:29] – [Running] andres | ||
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| ====== GIBBS2F90 ====== | ====== GIBBS2F90 ====== | ||
| - | \\ | ||
| - | Ignacy Misztal, University of Georgia, 3/7/2001 | ||
| ===== Summary ===== | ===== Summary ===== | ||
| + | Ignacy Misztal, University of Georgia, 3/7/2001 | ||
| + | \\ | ||
| Gibbs2f90 is a modification of gibbs1f90 to sample correlated effects jointly. This modification results in better mixing for models with correlated effects such as maternal or random-regression models. Memory requirements and CPU time per round are somewhat higher than in gibbs1f90. | Gibbs2f90 is a modification of gibbs1f90 to sample correlated effects jointly. This modification results in better mixing for models with correlated effects such as maternal or random-regression models. Memory requirements and CPU time per round are somewhat higher than in gibbs1f90. | ||
| + | \\ | ||
| + | See PREGSF90 with genotypes (SNP) for options. | ||
| ===== Running ===== | ===== Running ===== | ||
| + | You can run as | ||
| + | |||
| + | < | ||
| + | |||
| + | in which case you give the number of rounds, the burn-in, the storage of samples in the file '' | ||
| + | |||
| + | |||
| number of samples and length of burn-in? | number of samples and length of burn-in? | ||
| Line 40: | Line 49: | ||
| OPTION prior 5 2 -1 5 | OPTION prior 5 2 -1 5 | ||
| </ | </ | ||
| - | 2 is the degree of belief for the 5th effect, and 5 is the degree of belief for the residual.\\ | ||
| The (co)variance | The (co)variance | ||
| Degree of belief for all random effects should be specified using the following structure: | Degree of belief for all random effects should be specified using the following structure: | ||
| - | OPTION prior eff1 db1 eff2 db2 ... effn dbn -1 dbres'\\ | + | OPTION prior eff1 db1 eff2 db2 ... effn dbn -1 dbres\\ |
| - | effx correspond to the effect number and dbx to the degree of belief for this random effect.\\ | + | effx correspond to the effect number and dbx to the degree of belief for this random effect, -1 corresponds |
| - | -1 correspond | + | In this example 2 is the degree of belief for the 5th effect, and 5 is the degree of belief for the residual.\\ |
| < | < | ||
| OPTION seed 123 321 | OPTION seed 123 321 | ||
readme.gibbs2.txt · Last modified: 2024/03/25 18:22 by 127.0.0.1