Fig. 7

The roles of −minwin and −maxwin. The user defines the length of minwin (number of bases). This is the minimum region on the left or on the right of a given location that a sweep might affect. For example, for −minwin 1000, the SNPs located at least at a distance < 1,000 bp (1,000 bp on the right, and 1,000 bp on the left) from each grid point will contribute to the calculation of ω value. In this figure, the first ω value that will be calculated (its position is denoted as ‘location to assess omega’) will include three SNP positions on the left and three SNP positions on the right. Subsequently, OmegaPlus will gradually include in the calculations all SNPs on the left and right subregions one after the other until the ‘Max left’ and ‘Max right’ borders are reached. ‘Max left border’ and ‘Max right border’ are defined by the maxwin flag. For this position, the highest ω value is reported