faq
This is an old revision of the document!
Table of Contents
FAQ: examples and options for BLUPF90 family programs
Download BLUPF90 manual
Frequent mistakes in data, pedigree, and parameter files for BLUPF90 programs
Data preparation program
REML
- remlf90: EM algorithm
- airemlf90: Average Information REML + REMLF90 including heterogeneous residual variances Standard Errors (PDF)
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
- gibbs2f90: Useful with missing traits
- gibbs3f90: With heterogeneous residual variances
- thrgibbs1f90: Threshold + linear model
- thrgibbs3f90: Threshold + linear model with heterogeneous residual variances
- gibbsf90test: This is a beta version for a combined Gibbs programs of gibbs2f90, gibbs3f90, thrgibbs1f90, and thrgibbs3f90
Post-Gibbs Analysis
- 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
- blupf90: (G)BLUP with SOR, FSPAK or PCG
- predictf90: Calculates y-hat
- blup90iod2: (G)BLUP for a large number of equations (available only under some conditions)
- blup90iod2r: (G)BLUP with GIBBS3F90-type heterogeneous residual variance for a large number of equations (available only under some conditions)
- blup90iod2hr: (G)BLUP with AIREMLF90-type 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 multi-breed evaluations (available only under some conditions). The prior external EBV can be from other breeds, lines, foreign origins, …
Accuracy (approximation)
Genomic Analysis
Technical problems in Windows / Linux
- System Error: Received a message like “The program can't start because libiomp5md.dll is missing…” in Windows.
- Segmentation Fault: Received a message with “Segmentation fault”
- Better settings for OpenMP: How should I define the number of threads used with a program?
faq.1534881574.txt.gz · Last modified: 2024/03/25 18:22 (external edit)