Variance Components Software
Software for estimating variance components in mixed models and genetic evaluations
BLUPF90
Ignacy Misztal (UGA)
Foundational software for estimating variance components in animal mixed models. Widely used in the USA breeding industry.
ASReml
Arthur Gilmour
Commercial software for variance component estimation. Available as standalone and R package versions. Industry standard for complex models.
EchidnaMMS
Arthur Gilmour
New project by Arthur Gilmour. Appears to be a modern alternative to ASReml.
DMU
Per Madsen & Just Jensen (Aarhus University)
Package for analyzing multivariate mixed models in quantitative genetics and genomics.
GCTA
Yang Lab
Software for variance component analysis and GWAS using genome-wide SNPs. Available since 2011.
Helical
Modern web-based database platform for management and storage of all manner of breeding program data including pedigree, performance, SNP data, and more, and includes a command line toolset for manipulating and processing genomic data for evaluations.