readme.aireml
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readme.aireml [2013/07/17 16:27] – shogo | readme.aireml [2014/06/06 15:27] – [Options] ignacio | ||
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</ | </ | ||
Run EM-REML (REMLF90) for first 10 rounds to get initial variances within the parameter space (default 0). | Run EM-REML (REMLF90) for first 10 rounds to get initial variances within the parameter space (default 0). | ||
+ | < | ||
+ | OPTION use_yams | ||
+ | </ | ||
+ | Run the program with YAMS (modified FSPAK). The computing time can be dramatically improved. | ||
< | < | ||
OPTION tol 1d-12 | OPTION tol 1d-12 | ||
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Store solutions and those s.e. | Store solutions and those s.e. | ||
< | < | ||
- | OPTION | + | OPTION |
</ | </ | ||
- | Set the missing value (default 0). | + | y-hat and residuals will be included in " |
+ | < | ||
+ | OPTION missing -999 | ||
+ | </ | ||
+ | Specify | ||
**Heterogeneous residual variances for a single trait** | **Heterogeneous residual variances for a single trait** | ||
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</ | </ | ||
Specify the SNP file name to use genotype data. | Specify the SNP file name to use genotype data. | ||
+ | |||
+ | < | ||
+ | Calculate SD for function of (co)variances by repeated sampling of parameters estimates from their asymptotic multivariate normal distribution, | ||
+ | |||
+ | '' | ||
+ | '' | ||
+ | Each element of the function corresponds to (co)variances elements and could include any the random effects (G) and residual (R) (co)variances. | ||
+ | Notation is with reference to the effect and trait number:\\ | ||
+ | '' | ||
+ | '' | ||
+ | |||
+ | OPTION se_covar_function P | ||
+ | < | ||
+ | Set the number of samples to calculate SE for function of (co)variances.\\ | ||
+ | default value 5000 | ||
+ | < | ||
+ | Indicate to store in file samples of (co)variances function for postprocessing (histogram, etc.) | ||
readme.aireml.txt · Last modified: 2024/03/25 18:22 by 127.0.0.1