Ignacy Misztal (UGA)
Foundational software for estimating variance components in animal mixed models. Widely used in the USA breeding industry.
Variance Components Software
Software for estimating variance components in mixed models and genetic evaluations
Arthur Gilmour
Commercial software for variance component estimation. Available as standalone and R package versions. Industry standard for complex models.
Arthur Gilmour
New project by Arthur Gilmour. Appears to be a modern alternative to ASReml.
Per Madsen & Just Jensen (Aarhus University)
Package for analyzing multivariate mixed models in quantitative genetics and genomics.
Yang Lab
Software for variance component analysis and GWAS using genome-wide SNPs. Available since 2011.
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.