readme.blupf90
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readme.blupf90 [2012/05/28 14:34] – shogo | readme.blupf90 [2014/04/25 17:18] – shogo | ||
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- | The documentation for blupf90 is available separately as a PDF document. | + | ====== BLUPF90 ====== |
- | The following lines can be added at the end of parameter file for blupf90: | + | |
- | Available options: | + | ===== Summary ===== |
+ | The documentation for blupf90 is available separately as a {{:blupf90.pdf|PDF}} document. | ||
+ | \\ | ||
+ | See PREGSF90 with genotypes (SNP) for options. | ||
+ | ===== Options ===== | ||
+ | < | ||
OPTION conv_crit 1e-12 | OPTION conv_crit 1e-12 | ||
- | + | </ | |
- | Set convergence criteria (deault 1e-12). | + | Set convergence criteria (deault 1e-12). |
+ | < | ||
OPTION maxrounds 10000 | OPTION maxrounds 10000 | ||
- | + | </ | |
- | Set maximum number of rounds (default 1000). | + | Set maximum number of rounds (default 1000). |
+ | < | ||
OPTION solv_method FSPAK | OPTION solv_method FSPAK | ||
- | + | </ | |
- | Selection solutions by FSPAK, SOR or PCG (default PCG). | + | Selection solutions by FSPAK, SOR or PCG (default PCG). |
+ | < | ||
OPTION r_factor 1.6 | OPTION r_factor 1.6 | ||
- | + | </ | |
- | Set relaxation factor for SOR (default 1.4). | + | Set relaxation factor for SOR (default 1.4). |
+ | < | ||
OPTION sol se | OPTION sol se | ||
- | + | </ | |
- | Store solutions and s.e. | + | Store solutions and s.e. |
+ | < | ||
OPTION missing -999 | OPTION missing -999 | ||
- | + | </ | |
- | | + | Specify missing observations |
+ | < | ||
OPTION residual | OPTION residual | ||
- | + | </ | |
- | y-hat and residual will be shown in yhat_residual. | + | y-hat and residual will be included |
+ | < | ||
OPTION blksize 3 | OPTION blksize 3 | ||
- | + | </ | |
- | Set block size for preconditioner (default 1). | + | Set block size for preconditioner (default 1). |
+ | < | ||
+ | OPTION prior_solutions | ||
+ | </ | ||
+ | Using the previous solution file to start the iteration. An additional software is required to use this option. | ||
+ | < | ||
+ | OPTION stdresidual | ||
+ | </ | ||
+ | y-hat and student residuals will be included in " | ||
+ | < | ||
+ | OPTION check_levels 0 | ||
+ | </ | ||
+ | Check levels (default 1 = true). | ||
+ | < | ||
+ | OPTION use_yams | ||
+ | </ | ||
+ | Run the program with YAMS (modified FSPAK). | ||
+ | < | ||
OPTION SNP_file snp | OPTION SNP_file snp | ||
- | + | </ | |
- | Specify the SNP file name to use genotype data. | + | Specify the SNP file name to use genotype data. |
readme.blupf90.txt · Last modified: 2024/05/15 19:00 by dani