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readme.gibbs3 [2016/01/05 21:27] shogo |
readme.gibbs3 [2019/05/14 02:21] yutaka |
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</file> | </file> | ||
The position "5" to identify the interval in the data file and the number of intervals "10" for heterogeneous residual variances. | The position "5" to identify the interval in the data file and the number of intervals "10" for heterogeneous residual variances. | ||
+ | |||
+ | <file> | ||
+ | OPTION fixed_var all 1 2 3 | ||
+ | </file> | ||
+ | All solutions and posterior means and SD for effects for effects1, 2, and 3 are stored in "all_solutions" and in "final_solutions" every round using fixed variances. Without numbers, all solutions for all effects are stored. | ||
+ | <file> | ||
+ | OPTION fixed_var mean 1 2 3 | ||
+ | </file> | ||
+ | Posterior means and SD for effects1, 2, and 3 in "final_solutions". | ||
+ | |||
<file> | <file> | ||
- | OPTION hetres_var | ||
x11 x12 x13 | x11 x12 x13 | ||
x21 x22 x23 | x21 x22 x23 | ||
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z31 z32 z33 | z31 z32 z33 | ||
</file> | </file> | ||
- | Give residual covariances for each interval (e.g., x, y, and z). | + | When ''fixed_var'' is used, you should provide the residual (co)variances in the file ''hetres''. |
- | <file> | + | Give residual covariances for each interval. |
- | OPTION fixed_var all 1 2 3 | + | For example, in the above file, we assume a 3 trait-model and each covariance matrix is 3 x 3 (e.g., x, y, and z). |
- | </file> | + | Note that the older version reads the variance components from the parameter file. |
- | All solutions and posterior means and SD for effects for effects1, 2, and 3 are stored in "all_solutions" and in "final_solutions" every round using fixed variances. Without numbers, all solutions for all effects are stored. | + | The current version reads the external file "hetres" and the variance components included in the parameter file will not be used any more. |
- | <file> | + | |
- | OPTION fixed_var mean 1 2 3 | + | |
- | </file> | + | |
- | Posterior means and SD for effects1, 2, and 3 in "final_solutions". | + | |
<file> | <file> | ||
OPTION solution all 1 2 3 | OPTION solution all 1 2 3 | ||
</file> | </file> | ||
+ | Caution: this option will create a huge output solution file when you run many rounds and/or use a large model. | ||
All solutions and posterior means and SD for effects1, 2, and 3 are stored in "all_solutions" and in "final_solutions" every round. Without numbers, all solutions for all effects are stored. | All solutions and posterior means and SD for effects1, 2, and 3 are stored in "all_solutions" and in "final_solutions" every round. Without numbers, all solutions for all effects are stored. | ||
<file> | <file> | ||
OPTION solution mean 1 2 3 | OPTION solution mean 1 2 3 | ||
</file> | </file> | ||
+ | Caution: this option will create a huge output solution file when you run many rounds and/or use a large model. | ||
Posterior means and SD for effects1, 2, and 3 in "final_solutions". | Posterior means and SD for effects1, 2, and 3 in "final_solutions". | ||
<file> | <file> |