There are also R packages you can use: pedigreemm and MCMCglmm. If you want to run your own program you can take the example code bellow and start from it. There are many programs that can be used for analyzing your data with these models, e.g., ASREML, BLUPf90, MATVEC, MiXBLUP & MiX99, SurvivalKit, PEST/VCE, WOMBAT, …).
Pedigree based mixed models (often called animal models, due to modelling animal performance) are the cornerstone of animal breeding and quantitative genetics.
