iAntCount 2000 //number of ants iItCountLarge 205 //number of iterations for the large SNP sets iItCountSmall 410 //number of iterations for the small SNP sets alpha 1 //weight given to pheromone deposited by ants iTopModel 4000 //number of top ranking SNP sets in the first stage iTopLoci 400 //number of loci with top ranking pheromone in the first stage rou 0.05 //evaporation rate in Ant Colony Optimizaion tau 100 //initial pheromone level for each locus largesetsize 6 //size of the large SNP sets smallsetsize 3 //size of the small SNP sets iEpiModel 2 //number of SNPs in an epistatic interaction pvalue 0.01 //p value threshold (after Bonferroni correction) INPFILE chr22.txt //input file name for case-control genotype data OUTFILE results22.txt //output file name for detected epistatic interactions