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faq [2018/03/13 21:35] – dani | faq [2018/07/09 19:21] – [Genomic Analysis] shogo |
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==== Post-Gibbs Analysis ==== | ==== Post-Gibbs Analysis ==== |
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* [[readme.postgibbs|postgibbsf90]]: Statistics and graphics for convergence diagnosis and post-Gibbs analysis (use postgibbsold for old Gibbs sampler programs) | * [[readme.postgibbs|postgibbsf90]]: Statistics and graphics for convergence diagnosis and post-Gibbs analysis (use postgibbsold for old Gibbs sampler programs). The graphs are created with gnuplot, which must be pre-installed. |
==== BLUP ==== | ==== BLUP ==== |
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* [[readme.pcg2r|blup90iod2r]]: (G)BLUP with GIBBS3F90-type heterogeneous residual variance for a large number of equations (available only under some conditions) | * [[readme.pcg2r|blup90iod2r]]: (G)BLUP with GIBBS3F90-type heterogeneous residual variance for a large number of equations (available only under some conditions) |
* [[readme.pcg2hr|blup90iod2hr]]: (G)BLUP with AIREMLF90-type heterogeneous residual variance for a large number of equations (available only under some conditions) | * [[readme.pcg2hr|blup90iod2hr]]: (G)BLUP with AIREMLF90-type heterogeneous residual variance for a large number of equations (available only under some conditions) |
* [[readme.thr1pcg|cblup90iod2]]: BLUP with threshold + linear model for a large number of equations (available only under some conditions) | * [[readme.thr1pcg|cblup90iod2]]: (G)BLUP with threshold + linear model for a large number of equations (available only under some conditions) |
| * [[blup90mbe2]]: (G)BLUP for a large number of equations for multi-breed evaluations (available only under some conditions). The prior external EBV can be from other breeds, lines, foreign origins, ... |
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==== Accuracy (approximation) ==== | ==== Accuracy (approximation) ==== |
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* [[readme.pregsf90|preGSf90]]: Pre-analysis of genomic programs with options, including options for postGSf90 (GWAS) | * [[readme.pregsf90|preGSf90]]: Pre-analysis of genomic programs with options, including options for postGSf90 (GWAS) |
| * [[readme.pregsf90|postGSf90]]: Post-analysis of genomic programs with options (GWAS) |
| * [[readme.predf90|predf90]]: Predict EBV with only SNP |
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==== Technical problems in Windows / Linux ==== | ==== Technical problems in Windows / Linux ==== |