Figure 2

Plot of LRT and X_W² against the position of linkage map obtained by the analyses of one simulated data set in Case II for chromosome 1 (a) and chromosome 2 (b). Solid curves and dotted curves indicate the results obtained by the proposed method and NPIM method, respectively. We used LRT and X_W² as test statistics for detecting loci in the proposed method and NPIM method, respectively. NPIM method treats the category, C_j, as phenotypic value j (j=0,1,2,3) and requires no assumptions about trait distribution. Horizontal lines are threshold values of genome-wide 5% level obtained by the analyses with the proposed method (solid lines) and NPIM method (dotted line) based on 5000 simulated data sets generated under the null model, where there are no loci affecting the trait. The true positions of loci affecting the trait are indicated by arrows.