readme.reml
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readme.reml [2013/07/17 16:26] – shogo | readme.reml [2014/11/25 11:34] – shogo | ||
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===== Summary ===== | ===== Summary ===== | ||
- | Variance | + | The variance |
\\ | \\ | ||
See PREGSF90 with genotypes (SNP) for options. | See PREGSF90 with genotypes (SNP) for options. | ||
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</ | </ | ||
Maximum rounds (default 5000). | Maximum rounds (default 5000). | ||
+ | < | ||
+ | OPTION sol se | ||
+ | </ | ||
+ | Store solutions and se. | ||
+ | < | ||
+ | OPTION residual | ||
+ | </ | ||
+ | y-hat and residuals will be included in " | ||
+ | < | ||
+ | OPTION missing -999 | ||
+ | </ | ||
+ | Specify missing observations (default 0). | ||
+ | < | ||
+ | OPTION use_yams | ||
+ | </ | ||
+ | Run the program with YAMS (modified FSPAK). The computing time can be dramatically improved. | ||
< | < | ||
OPTION constant_var 5 1 2 | OPTION constant_var 5 1 2 | ||
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Specify the SNP file name to use genotype data. | Specify the SNP file name to use genotype data. | ||
- | ===== Does remlf90 | + | ===== Does REMLF90 |
- | Even when there is no variance, remlf90 | + | When the expected variance is very small or the covariance matrix is close to non-positive definite, try with two different starting values (e.g., much smaller = 0.00001 and much bigger = 1000 when the expected variance |
+ | |||
+ | The REMLF90 program | ||
+ | If AIREMLF90 does not converge but REMLF90 converges with the same data set and the same model, rerun REMLF90 with a small starting value to check the estimate because it could be artifact. |
readme.reml.txt · Last modified: 2024/03/25 18:22 by 127.0.0.1