FAQ: examples and options for BLUPF90 family programs
Frequent mistakes in data, pedigree, and parameter files for BLUPF90 programs
Data preparation program
REML
Gibbs sampler
OPTIONs for priors and degrees of belief, for restarting from the last sampling, and for storing solutions and SD with or without fixed (known) variances
gibbs1f90: Faster than GIBBS2F90 without missing traits

gibbs3f90: With heterogeneous residual variances

thrgibbs3f90: Threshold + linear model with heterogeneous residual variances
PostGibbs Analysis
postgibbsf90: Statistics and graphics for convergence diagnosis and postGibbs analysis (use postgibbsold for old Gibbs sampler programs). The graphs are created with gnuplot, which must be preinstalled.
BLUP
blupf90: (G)BLUP with SOR, FSPAK or PCG
blup90iod2: (G)BLUP for a large number of equations (available only under some conditions)
blup90iod2r: (G)BLUP with GIBBS3F90type heterogeneous residual variance for a large number of equations (available only under some conditions)
blup90iod2hr: (G)BLUP with AIREMLF90type heterogeneous residual variance for a large number of equations (available only under some conditions)
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 multibreed evaluations (available only under some conditions). The prior external EBV can be from other breeds, lines, foreign origins, …
Accuracy (approximation)
accf90: Accuracy (reliability) for a large number of animals (available only under some conditions)
accf90GS: Accuracy (reliability) for a large number of animals with genotypes (available only under some conditions)
Genomic Analysis
preGSf90: Preanalysis of genomic programs with options, including options for postGSf90 (GWAS)
Technical problems in Windows / Linux
System Error: Received a message like “The program can't start because libiomp5md.dll is missing…” in Windows.

