Clipping one of two markers which are located very close to each other

As the result of the experiments that were performed,  we  found that clipping one of two markers that the distance between them is signed by a small recombination value doesn't influence the LOD score, regardless to the location of the marker on the map. We define the bound for the recombination value as THETA_BOUND , and  can clip the markers with recombination value lower than THETA_BOUND.

Experimental results for measuring the influence of clipping close markers on the LOD score:

• Here we'd like to show the influence on the LOD score of  clipping markers with close to their neighbor more than some const THETA_BOUND as a function of ratio RATIO_BOUND for the same file. This way we want to show that the proximity of  markers ,which are very close to each other, to the varied locus influences the LOD score.

datafile40_70_9_0.01.dat, pedfile40_70_9_0.01.dat, THETA_BOUND = 0.005

 Exact LOD score Approx LOD score error rate RATIO_BOUND Num Loci Num People 40 70 -44.808750 -44.808070 0% 0.3 40 70 -44.808750 -43.267929 3.4% 0.2 40 70 -44.808750 -48.138169 7.4% 0

datafile20_20_7_0.01.dat, pedfile20_20_7_0.01.dat, THETA_BOUND = 0.005

 Exact LOD score Approx LOD score error rate RATIO_BOUND Num Loci Num People 20 20 0.147506 0.144640 1.9% 0.3 20 20 0.147506 0.159113 7.9% 0.2 20 20 0.147506 0.014602 90% 0

• Here we'd like to show the influence on the LOD score of  clipping  close markers from the same input file as a function of the THETA_BOUND with distance from the varied locus higher than some const ratio RATIO_BOUND. This way we want to show that the proximity of clipped markers to their neighbor  influences the LOD score.

datafile40_70_9_rand.dat, pedfile40_70_9_rand.dat, RATIO_BOUND = 0.3

 Exact LOD score Approx LOD score error rate THETA_BOUND Num Loci Num People 40 70 -47.032776 -47.032776 0% 0.001 40 70 -47.032776 -45.570694 3% 0.005 40 70 -47.032776 -45.566095 3.1% 0.008

datafile20_20_7_rand.dat, pedfile20_20_7_rand.dat, INFO_DISTANCE_BOUND = 0.3

 Exact LOD score Approx LOD score error rate THETA_BOUND Num Loci Num People 20 20 0.113474 0.109877 3.1% 0.001 20 20 0.113474 0.098526 13.1% 0.005 20 20 0.113474 0.183514 61.7% 0.008

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