application_programs
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| application_programs [2018/05/07 18:13] – dani | application_programs [2018/06/20 20:43] – shogo | ||
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| * [[readme.reml|REMLF90]] - accelerated EM REML | * [[readme.reml|REMLF90]] - accelerated EM REML | ||
| * [[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) | ||
| - | * CBLUP90 | + | * CBLUP90 |
| - | * CBLUP90THR - as above but with thresholds computed and many linear traits (B. Auvray) | + | * CBLUP90THR - as above but with thresholds computed and many linear traits (B. Auvray) |
| * CBLUP90REML - as above but with quasi REML (B. Auvray) - no genomic | * CBLUP90REML - as above but with quasi REML (B. Auvray) - no genomic | ||
| - | * GIBBSF90 - simple block implementation of Gibbs sampling - no genomic | + | * [[readme.gibbs|GIBBSF90]] - simple block implementation of Gibbs sampling - no genomic |
| * [[readme.gibbs1|GIBBS1F90]] - as above but faster for creating mixed model equations only once | * [[readme.gibbs1|GIBBS1F90]] - as above but faster for creating mixed model equations only once | ||
| * [[readme.gibbs2|GIBBS2F90]] - as above but with joint sampling of correlated effects | * [[readme.gibbs2|GIBBS2F90]] - as above but with joint sampling of correlated effects | ||
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| * PREDICTF90 - a program to calculate adjusted y, y_hat, and residuals (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 | * PREDF90 - a program to predict direct genomic value (DGV) for animals based on genotypes and SNP solution | ||
| + | * [[readme.blupf90new|BLUPF90TEST (new BLUPF90)]] - a combined program of blupf90, remlf90, and airemlf90: under test | ||
| + | * [[readme.gibbsf90new|GIBBSF90TEST (new GIBBSF90)]] - a combined program of gibbs2f90, gibbs3f90, thrgibbs1f90, | ||
| 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 PCG for very large models (S. Tsuruta) | * [[readme.pcg2|BLUP90IOD2]] - BLUP by iteration on data with PCG for very large models (S. Tsuruta) | ||
| + | * BLUP90IOD2R & BLUP90IOD2HR - BLUP90IOD2 with heterogeneous residual variances | ||
| * [[readme.thr1pcg|CBLUP90IOD]] - BLUP by iteration on data for threshold-linear models (working for one threshold and several linear traits) | * [[readme.thr1pcg|CBLUP90IOD]] - BLUP by iteration on data for threshold-linear models (working for one threshold and several linear traits) | ||
| * CBLUP90MBE - BLUP by iteration on data for threshold-linear models (working for one threshold and several linear traits) with support for very large models for multi-breed evaluations | * CBLUP90MBE - BLUP by iteration on data for threshold-linear models (working for one threshold and several linear traits) with support for very large models for multi-breed evaluations | ||
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| * BLUP90MBE - BLUP by iteration on data with support for very large models for multi-breed evaluations (A. Legarra) | * BLUP90MBE - BLUP by iteration on data with support for very large models for multi-breed evaluations (A. Legarra) | ||
| * [[readme.blupadj|BLUP90ADJ]] - BLUP data preadjustment tool | * [[readme.blupadj|BLUP90ADJ]] - BLUP data preadjustment tool | ||
| + | * [[readme.pcgtest|BLUP90IODTEST (new BLUP90IOD)]] - a combined program of BLUP90IOD2, BLUP90IOD2R, | ||
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| Included in application programs | Included in application programs | ||
application_programs.txt · Last modified: 2024/06/19 14:22 by andres