readme.renumf90
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readme.renumf90 [2024/03/25 18:22] – external edit 127.0.0.1 | readme.renumf90 [2024/05/15 18:44] – [Options] dani | ||
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- | allows indicating that missing value is the number x (e.g. 999) for instance if 0 is a valid record. | + | allows indicating that the missing value is the number x (e.g., 999), for instance, if 0 is a valid record. This is only to represent the missing value in the data. If there are covariables in the data, 0 is treated as a value, not missing information. Missing pedigree is always 0 and cannot be changed to another value. |
< | < | ||
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OPTION no_basic_statistics | OPTION no_basic_statistics | ||
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- | avoids the computation of basic statistics (min, max, correlations...) which take a certain time for very large data file. | + | avoids the computation of basic statistics (min, max, correlations, ...), which take a certain time for very large data file. |
< | < | ||
- | OPTION inbreeding_method | + | OPTION inbreeding_method |
</ | </ | ||
- | allows choosing a method for inbreeding calculation. The inbreeding coefficients are used later (in the other programs) to set up the coefficients for the A-inverse. | + | allows choosing a method for inbreeding calculation. The inbreeding coefficients are used later (in the other programs) to set up the coefficients for the A-inverse. |
+ | |||
+ | 1: Meuwissen and Luo (1992) | ||
+ | 2: Modified Meuwissen & Luo by Sargolzaei & Iwaisaki (2004) | ||
+ | 3: Modified Colleau by Sargolzaei et al. (2005) | ||
+ | 4: recursive tabular method | ||
+ | 5: method of Tier (1990) | ||
+ | 6: Hybrid parallel computing, which is basically a parallel (OMP) version of Meuwissen and Luo (1992) | ||
+ | 7: Recursive tabular with self-breeding generations. For populations with selfing, i.e., wheat | ||
- | * 7: Recursive tabular with self breeding generations . This method is for populations with selfing, i.e. wheat. | + | The default is method 1. Large speed-ups are made using method 6, but this requires using several threads (e.g., using '' |
- | * 6: Hybrid parallel computing which is basically a parallel (OMP) version of Meuwissen and Luo (1992) | + | |
- | * 5: method of Tier (1990) | + | |
- | * 4: recursive tabular method | + | |
- | * 3: Modified Colleau by Sargolzaei et al. (2005) | + | |
- | * 2: Modified Meuwissen & Luo by Sargolzaei & Iwaisaki (2004) | + | |
- | * 1: Meuwissen and Luo (1992) | + | |
- | + | ||
- | the default is method 1. Large speed-ups are made using method 6 but this requires using several threads (e.g. using '' | + | |
The end of the parameter file for '' | The end of the parameter file for '' | ||
- | All of these lines are passed to parameter file renf90.par to be used by application programs. | + | All of these lines are passed to the parameter file renf90.par to be used by application programs. |
readme.renumf90.txt · Last modified: 2024/05/22 18:53 by dani