application_programs
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application_programs [2014/04/09 16:31] – shogo | application_programs [2016/05/12 14:14] – dani | ||
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The [[distribution|programs]] support mixed models with multiple-correlated effects, multiple animal models and dominance. | The [[distribution|programs]] support mixed models with multiple-correlated effects, multiple animal models and dominance. | ||
+ | Download {{: | ||
- | * [[readme.blupf90|BLUPF90]] - BLUP in memory | + | * [[readme.blupf90|BLUPF90]] - BLUP in memory |
- | * [[readme.reml|REMLF90]] - accelerated EM REML {{remlf90.pdf}} | + | * [[readme.reml|REMLF90]] - accelerated EM REML |
* QXPAK - joint analysis of QTL and polygenic effects (M. Perez-Enciso) [[http:// | * QXPAK - joint analysis of QTL and polygenic effects (M. Perez-Enciso) [[http:// | ||
* [[readme.aireml|AIREMLF90]] - Average Information REML with several options including EM-REML and heterogeneous residual variances (S. Tsuruta) | * [[readme.aireml|AIREMLF90]] - Average Information REML with several options including EM-REML and heterogeneous residual variances (S. Tsuruta) | ||
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* [[readme.postgibbs|POSTGIBBSF90]] - statistics and graphics for post-Gibbs analysis (S. Tsuruta) | * [[readme.postgibbs|POSTGIBBSF90]] - statistics and graphics for post-Gibbs analysis (S. Tsuruta) | ||
* THRGIBBSF90 - Gibbs sampling for any combination of categorical and linear traits (D. Lee) | * THRGIBBSF90 - Gibbs sampling for any combination of categorical and linear traits (D. Lee) | ||
- | * [[readme.thrgibbs1|THRGIBBS1F90]] | + | * [[readme.thrgibbs1|THRGIBBS1F90]] |
* [[Readme.Renumf90|RENUMF90]] - a renumbering program that also can check pedigrees and assign unknown parent groups; supports large data sets | * [[Readme.Renumf90|RENUMF90]] - a renumbering program that also can check pedigrees and assign unknown parent groups; supports large data sets | ||
* [[Readme.Inbupgf90|INBUPGF90]] - a program to calculate inbreeding coefficients with incomplete pedigree (I. Aguilar) | * [[Readme.Inbupgf90|INBUPGF90]] - a program to calculate inbreeding coefficients with incomplete pedigree (I. Aguilar) | ||
+ | * [[Readme.SeekParentf90|SEEKPARENTF90]] - a program to verify paternity and parent discovery using SNP markers (I. Aguilar) | ||
+ | * PREDICTF90 - a program to calculate adjusted y, y_hat, and residuals (I. Aguilar) | ||
+ | * PREDF90 - a program to predict direct genomic value (DGV) for animals based on genotypes and SNP solution | ||
Available by request | Available by request | ||
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Available only under research agreement | Available only under research agreement | ||
- | * [[readme.pcg2|BLUP90IOD2]] - BLUP by iteration on data with support | + | * [[readme.pcg2|BLUP90IOD2]] - BLUP by iteration on data with PCG for very large models (S. Tsuruta) |
* [[readme.thr1pcg|CBLUP90IOD]] - BLUP by iteration on data for threshold-linear models | * [[readme.thr1pcg|CBLUP90IOD]] - BLUP by iteration on data for threshold-linear models | ||
* [[readme.acc|ACCF90]] - approximation of accuracies for breeding values | * [[readme.acc|ACCF90]] - approximation of accuracies for breeding values |
application_programs.txt · Last modified: 2024/06/19 14:22 by andres