Clipping less informative markers

As the result of the experiments that were performed,  we  found that the  percent of non-information of the marker ( percent of people that are unknown in this locus)  influences  the LOD score as well as the proximity of the marker to the iterated locus. The lower  the percent of  non-information of the marker  and  the proximity  to the iterated locus are, the bigger is the influence of this marker on the LOD score. (By proximity we mean a ratio that is defined as: ratio=(the distance from the marker to the varied locus)/(The distance from varied locus to the farthest locus on the map).)   We defined  bounds for the percent of non-information (PERCENT_BOUND) and for the ratio (INFO_DISTANCE_BOUND), above which clipping markers doesn't influence the LOD score.

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

• Here we'd like to show the influence on the LOD score of  clipping markers with percent of non-information higher than some const PERCENT_BOUND as a function of ratio INFO_DISTANCE_BOUND for the same file. This way we want to show that the proximity of not informative markers to the varied locus influences the LOD score.

datafile20_15_5.dat, pedfile20_15_5.dat, PERCENT_BOUND = 0.4

 Exact LOD score Approx LOD score error rate INFO_DISTANCE_BOUND Num Loci Num People 20 20 -0.161837 -0.162201 0.2% 0.55 20 20 -0.161837 -0.187914 16% 0.35 20 20 -0.161837 -0.113102 30.1% 0.2

datafile20_20_7.dat, pedfile20_20_7.dat, PERCENT_BOUND = 0.4

 Exact LOD score Approx LOD score error rate INFO_DISTANCE_BOUND Num Loci Num People 20 20 0.042357 0.042879 1.2% 0.4 20 20 0.042357 0.043108 1.7% 0.3 20 20 0.042357 -0.494675 1068% 0.2

• Here we'd like to show the influence on the LOD score of  clipping  not informative markers from the same input file as a function of the PERCENT_BOUND with distance from the varied locus higher than some const ratio INFO_DISTANCE_BOUND. This way we want to show that the percent of non-information of clipped markers  influences the LOD score.

datafile20_20_7.dat, pedfile20_20_7.dat, INFO_DISTANCE_BOUND = 0.4

 Exact LOD score Approx LOD score error rate PERCENT_BOUND Num Loci Num People 20 20 0.042357 0.042345 0.02% 0.65 20 20 0.042357 0.042268 0.2% 0.6 20 20 0.042357 -0.043108 1.8% 0.5

datafile20_15_5.dat, pedfile20_15_5.dat, INFO_DISTANCE_BOUND = 0.4

 Exact LOD score Approx LOD score error rate PERCENT_BOUND Num Loci Num People 20 15 -0.161837 -0.161837 0% 0.6 20 15 -0.161837 -0.161831 0% 0.5 20 15 -0.161837 -0.187914 16% 0.4

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