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1. Multi-trait_simulations Multi-trait_simulations Public

   Simulation program for single and multi-traits based purely on pedigree. Different mating designs (ranging from nested, factorial to random union of gamete), selection criterion (mass, high and low…

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2. dEBV_Garrick dEBV_Garrick Public

   Deregression based on Garrick et al. (2009). With pedigree and files containing EBVs, Deregression is undertaken and deregressed EVC, deregressed reliabilities and weights are outputted.

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3. accuracy_imputation accuracy_imputation Public

   comprehensive function for computing imputation accuracy. Accuracy has been computed as % correct, allelic error rate, correlation and correlation based on centered and scaled genotypes.

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4. imputation imputation Public

   Bash script that allows you to run BEAGLE v3, v4, and FIMPUTE using PLINK format binary input files.

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5. ROHs ROHs Public

   Generate binary runs of homozygosity files from PLINK output and making ROH plots per sample and averages

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6. haplos_analysis haplos_analysis Public

   Using haplotype blocks defined by Haploview and phased data, build the haplotype counts (change haplotypes into copies 0,1,2). Compute Genomic relationships based on the haplotypes

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