BLUPF90

Available for research (free)

• BLUPF90+ - a combined program of blupf90, remlf90, and airemlf90
• GIBBSF90+ - a combined program of gibbs1f90, gibbs2f90, gibbs3f90, thrgibbs1f90, and thrgibbs3f90
• POSTGIBBSF90 - statistics and graphics for post-Gibbs analysis (S. Tsuruta)
• RENUMF90 - a renumbering program that also can check pedigrees and assign unknown parent groups; supports large data sets
• PREGSF90 – genomic preprocessor that combines genomic and pedigree relationships (I. Aguilar)
• POSTGSF90 – genomic postprocessor that extracts SNP solutions after genomic evaluations (single step, GBLUP) (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
• QCF90 - a quality-control tool on genotypes and pedigree information (Y. Masuda)
• INBUPGF90 - a program to calculate inbreeding coefficients with incomplete pedigree (I. Aguilar)
• SEEKPARENTF90 - a program to verify paternity and parent discovery using SNP markers (I. Aguilar)

Available by request

• QXPAK - joint analysis of QTL and polygenic effects (M. Perez-Enciso) QxPak web page
• MRF90 - Method R program suitable for a large data set; contact T. Druet.
• COXF90 – Bayesian Cox model - contact J. P. Sanchez (JuanPablo.Sanchez@irta.cat)
• BLUPF90HYP – BLUPF90 with hypothesis testing (F and Chi2 tests) - contact J. P. Sanchez as above

Available only under research agreement

• BLUP90IOD2 - BLUP by iteration on data with PCG for very large models (S. Tsuruta)
• BLUP90IOD2RR & BLUP90IOD2HR - BLUP90IOD2 with heterogeneous residual variances (like in GIBBS3F90 & AIREMLF90)
• CBLUP90IOD2 - 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
• ACCF90 - approximation of accuracies for breeding values
• ACCF90GS - approximation of accuracies for genomic breeding values
• BLUP90MBE - BLUP by iteration on data with support for very large models for multi-breed evaluations (A. Legarra)
• BLUP90ADJ - BLUP data preadjustment tool
• DEPROOFSF90 - computation of deregressed proof (DRP)
• DYDF90 - computation of daughter yield deviation (DYD) known as progeny trait deviation
• BLUP90IODTEST (new BLUP90IOD) - a combined program of BLUP90IOD2, BLUP90IOD2RR, and BLUP90IOD2HR: under test