BLUPF90

The programs support mixed models with multiple-correlated effects, multiple animal models and dominance.

Most of the programs now support being called with the parameter file as an argument, e.g.

 blupf90+ renf90.par

This avoids typing the name of the file in interactive or doing the trick.

 echo renf90.par | blupf90

Download BLUPF90 family manual. Note that some programs shown below are not in the manual (e.g. inbupgf90)

How to cite the BLUPF90 manual: Misztal I., Tsuruta S., Lourenco D.A.L., Aguilar I., Legarra A., and Vitezica Z. 2014. Manual for BLUPF90 family of programs.

Programs

Available for research (free with restriction: Number of genotyped animals = 30,000)

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)
VALIDATIONF90 - a program to perform validation of predictions
RRMEBVF90 - postprocessor for random regression models
GAMMAF90 - calculates metafounder relationships (aka Gamma matrix) from pedigree and markers

Available only under agreement

BLUP90IOD2 - BLUP by iteration on data with PCG for very large models (S. Tsuruta)
BLUP90IOD3 (new BLUP90IOD) - a combined program of BLUP90IOD2, BLUP90IOD2RR, BLUP90IOD2HR, and BLUP90MBE2 with new features
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 reliabilities for breeding values
ACCF90GS - approximation of reliabilities for genomic breeding values based on diagonals of G
ACCF90GS2 - new approximation of reliabilities for genomic breeding values based on block sparse inversion
BLUP90ADJ - BLUP data preadjustment tool