readme.thrgibbs1
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| readme.thrgibbs1 [2012/05/29 13:19] – shogo | readme.thrgibbs1 [2012/05/29 16:51] – shogo | ||
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| ====== THRGIBBS1F90 ====== | ====== THRGIBBS1F90 ====== | ||
| \\ | \\ | ||
| - | Gibbs sampler for threshold-linear mixed models | + | Gibbs sampler for threshold-linear mixed models. The original program (THRGIBBSF90) was written by DeukHwan Lee in 2001 based on GIBBS2F90. Rewritten by Shogo Tsuruta in 2004. |
| =====Summary===== | =====Summary===== | ||
| - | |||
| - | Based on THRGIBBSF90 written by DeukHwan Lee at the University of Georgia, 2001 based on GIBBS2F90. Rewritten by Shogo Tsuruta, 2004. Last modified 09/05/2007 | ||
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| - | =====Functionality===== | ||
| THRGIBBS1F90 implements Gibbs sampler for mixed threshold-linear models involving multiple categorical and linear variables. Thresholds and variances can be estimated or assumed. Another version of thrgibbs1f90b for binary responses is available. | THRGIBBS1F90 implements Gibbs sampler for mixed threshold-linear models involving multiple categorical and linear variables. Thresholds and variances can be estimated or assumed. Another version of thrgibbs1f90b for binary responses is available. | ||
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| OPTION fixed_var all | OPTION fixed_var all | ||
| </ | </ | ||
| - | Store all samples for solutions in " | + | store all samples for solutions in " |
| < | < | ||
| OPTION fixed_var all 1 2 3 | OPTION fixed_var all 1 2 3 | ||
| </ | </ | ||
| - | Store all samples for solutions in " | + | store all samples for solutions in " |
| < | < | ||
| OPTION fixed_var mean | OPTION fixed_var mean | ||
| </ | </ | ||
| - | Only posterior means and SD for solutions are calculated for all effects in " | + | only posterior means and SD for solutions are calculated for all effects in " |
| < | < | ||
| OPTION fixed_var mean 1 2 3 | OPTION fixed_var mean 1 2 3 | ||
| - | Only posterior means and SD for solutions are calculated for effects 1, 2, and 3 in " | + | only posterior means and SD for solutions are calculated for effects 1, 2, and 3 in " |
| </ | </ | ||
| < | < | ||
| OPTION solution all | OPTION solution all | ||
| </ | </ | ||
| - | Store all samples for solutions in " | + | store all samples for solutions in " |
| < | < | ||
| OPTION solution all 1 2 3 | OPTION solution all 1 2 3 | ||
| </ | </ | ||
| - | Store all samples for solutions in " | + | store all samples for solutions in " |
| < | < | ||
| OPTION solution mean | OPTION solution mean | ||
| Line 51: | Line 46: | ||
| OPTION solution mean 1 2 3 | OPTION solution mean 1 2 3 | ||
| </ | </ | ||
| - | Only posterior means and SD for solutions are calculated for effects 1, 2, and 3 in " | + | only posterior means and SD for solutions are calculated for effects 1, 2, and 3 in " |
| < | < | ||
| OPTION cont 10000 | OPTION cont 10000 | ||
| </ | </ | ||
| - | " | + | " |
| - | The user can restart the program from the last run. | + | |
| < | < | ||
| OPTION prior 5 | OPTION prior 5 | ||
| Line 68: | Line 62: | ||
| OPTION thresholds 0.0 1.0 2.0 | OPTION thresholds 0.0 1.0 2.0 | ||
| </ | </ | ||
| - | Set the fixed thresholds. No need to set 0 for binary traits | + | set the fixed thresholds. No need to set 0 for binary traits. |
| < | < | ||
| - | OPTION residual 1 | + | OPTION residual 1. |
| </ | </ | ||
| - | Set the residual variance = 1 | + | set the residual variance = 1. |
| < | < | ||
| - | OPTION censored xx | + | OPTION censored xx. |
| </ | </ | ||
| Negative values of the last category in the data set indicate censored records. " | Negative values of the last category in the data set indicate censored records. " | ||
readme.thrgibbs1.txt · Last modified: 2024/03/25 18:22 by 127.0.0.1