Scripts to run simulations. The runSimulator_glost.sh script is used to set all the parameters for the analysis. These parameters are: #### Switches # Genome simulation switch (0=off, 1=on) simu_geno=0 # Permutation switch (0=off, 1=on) permut=1 ############################################################################################################ #### Parameters nbrun=1000 # Nb individuals, used only if simu_geno=1 nb_ind=1000 # Min MAF threshold (for pheno simulation) minmaf=0.05 # Max MAF threshold (for pheno simulation) maxmaf=0.5 # Trait heritability (for pheno simulation) her=0.8 # Nb of causal SNPs nb_snps=10 # Nb of phenotype replicates replicates=1 # Nb permutations, used only if permut=1 nb_permut=100 This script will call run_FaSTLMM.py which will then run the associations, the permutations according to the defined parameters. Note: this script only writes the command to be executed in a text file, as the commands were executed on a supercomputer with specific rules for parallel computing.