PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
151-200 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I1_5 | * | het | 92.1214 | 97.7872 | 87.0762 | 61.9735 | 77292 | 1749 | 76863 | 11408 | 10744 | 94.1795 | |
| ghariani-varprowl | INDEL | D1_5 | * | het | 92.9952 | 99.3560 | 87.3999 | 64.6847 | 87009 | 564 | 86983 | 12540 | 10606 | 84.5774 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 59.6473 | 59.7203 | 59.5745 | 39.9758 | 12300 | 8296 | 17724 | 12027 | 10545 | 87.6777 | |
| jpowers-varprowl | INDEL | D1_5 | * | het | 92.8158 | 97.3223 | 88.7081 | 61.6875 | 85229 | 2345 | 85221 | 10848 | 10534 | 97.1055 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 56.4584 | 55.1138 | 57.8702 | 55.3114 | 17632 | 14360 | 17879 | 13016 | 10534 | 80.9312 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.5775 | 77.4363 | 81.8404 | 75.0483 | 49893 | 14538 | 49840 | 11059 | 10522 | 95.1442 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 78.5574 | 75.3845 | 82.0092 | 73.4719 | 48571 | 15860 | 48524 | 10645 | 10484 | 98.4876 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 70.3688 | 88.2855 | 58.4973 | 39.9312 | 6519 | 865 | 16856 | 11959 | 10481 | 87.6411 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 61.6156 | 61.1636 | 62.0744 | 51.1512 | 22381 | 14211 | 22533 | 13767 | 10331 | 75.0418 | |
| ghariani-varprowl | INDEL | I1_5 | * | het | 92.7410 | 98.8133 | 87.3718 | 65.8570 | 78102 | 938 | 78120 | 11291 | 10122 | 89.6466 | |
| jpowers-varprowl | INDEL | I1_5 | * | het | 91.4249 | 95.2000 | 87.9379 | 62.1984 | 75247 | 3794 | 75259 | 10323 | 10077 | 97.6170 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 69.4365 | 97.1073 | 54.0383 | 40.3757 | 8124 | 242 | 11749 | 9993 | 9948 | 99.5497 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.9332 | 98.8085 | 76.0265 | 77.4229 | 32840 | 396 | 32867 | 10364 | 9929 | 95.8028 | |
| gduggal-bwavard | INDEL | D1_5 | * | * | 90.6910 | 89.3918 | 92.0286 | 58.1851 | 131178 | 15567 | 129649 | 11230 | 9891 | 88.0766 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.3810 | 94.8490 | 75.9939 | 75.6668 | 31524 | 1712 | 31558 | 9969 | 9887 | 99.1775 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 60.9265 | 84.9007 | 47.5105 | 54.7800 | 9750 | 1734 | 9733 | 10753 | 9871 | 91.7976 | |
| gduggal-bwavard | INDEL | D1_5 | * | het | 93.4417 | 99.0111 | 88.4655 | 62.3753 | 86708 | 866 | 85823 | 11190 | 9864 | 88.1501 | |
| gduggal-snapfb | INDEL | * | * | * | 92.2602 | 90.5733 | 94.0112 | 57.2799 | 312063 | 32479 | 322983 | 20575 | 9778 | 47.5237 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 58.9492 | 55.4636 | 62.9024 | 64.8301 | 17420 | 13988 | 17390 | 10256 | 9749 | 95.0566 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 58.9492 | 55.4636 | 62.9024 | 64.8301 | 17420 | 13988 | 17390 | 10256 | 9749 | 95.0566 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 56.4553 | 51.6684 | 62.2197 | 60.5704 | 16228 | 15180 | 16207 | 9841 | 9672 | 98.2827 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 56.4553 | 51.6684 | 62.2197 | 60.5704 | 16228 | 15180 | 16207 | 9841 | 9672 | 98.2827 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 57.7786 | 84.8230 | 43.8104 | 49.2561 | 8076 | 1445 | 8069 | 10349 | 9583 | 92.5983 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 62.7686 | 68.2214 | 58.1230 | 35.1882 | 8542 | 3979 | 16951 | 12213 | 9571 | 78.3673 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.2252 | 97.0052 | 57.5294 | 65.0968 | 13345 | 412 | 13375 | 9874 | 9432 | 95.5236 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.2252 | 97.0052 | 57.5294 | 65.0968 | 13345 | 412 | 13375 | 9874 | 9432 | 95.5236 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 68.7607 | 88.3768 | 56.2708 | 60.0546 | 12158 | 1599 | 12195 | 9477 | 9356 | 98.7232 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 68.7607 | 88.3768 | 56.2708 | 60.0546 | 12158 | 1599 | 12195 | 9477 | 9356 | 98.7232 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9251 | 78.3877 | 83.6323 | 72.4014 | 50506 | 13925 | 50171 | 9819 | 9240 | 94.1033 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | * | 67.1085 | 66.3284 | 67.9072 | 58.7807 | 19872 | 10088 | 19761 | 9339 | 9228 | 98.8114 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.2553 | 98.3091 | 76.8345 | 75.3229 | 32674 | 562 | 32511 | 9802 | 9224 | 94.1032 | |
| anovak-vg | SNP | ti | * | het | 98.0963 | 98.0413 | 98.1515 | 22.3908 | 1256788 | 25109 | 1253632 | 23610 | 9204 | 38.9835 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 77.1881 | 96.8041 | 64.1824 | 31.3791 | 10026 | 331 | 16242 | 9064 | 9022 | 99.5366 | |
| anovak-vg | INDEL | D1_5 | * | * | 90.2130 | 89.2296 | 91.2183 | 56.6455 | 130940 | 15805 | 132532 | 12759 | 9010 | 70.6168 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 62.4312 | 62.4952 | 62.3673 | 38.8416 | 11411 | 6848 | 16160 | 9751 | 8900 | 91.2727 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 73.0196 | 90.4177 | 61.2365 | 38.8818 | 6039 | 640 | 15303 | 9687 | 8838 | 91.2357 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 59.9738 | 55.8902 | 64.7011 | 63.2619 | 17554 | 13854 | 17358 | 9470 | 8822 | 93.1573 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 59.9738 | 55.8902 | 64.7011 | 63.2619 | 17554 | 13854 | 17358 | 9470 | 8822 | 93.1573 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.9133 | 95.0643 | 57.8299 | 64.8667 | 13078 | 679 | 12962 | 9452 | 8806 | 93.1655 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.9133 | 95.0643 | 57.8299 | 64.8667 | 13078 | 679 | 12962 | 9452 | 8806 | 93.1655 | |
| gduggal-snapvard | INDEL | * | HG002complexvar | * | 84.5803 | 84.0929 | 85.0735 | 55.5785 | 64696 | 12238 | 73113 | 12828 | 8678 | 67.6489 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 49.3962 | 45.5461 | 53.9573 | 55.1768 | 10134 | 12116 | 10117 | 8633 | 8451 | 97.8918 | |
| anovak-vg | SNP | * | HG002complexvar | * | 97.6964 | 96.9184 | 98.4870 | 19.4533 | 731138 | 23247 | 712315 | 10943 | 8438 | 77.1087 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.4183 | 79.5592 | 79.2778 | 75.7467 | 51260 | 13170 | 51089 | 13354 | 8419 | 63.0448 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 70.9708 | 71.4018 | 70.5450 | 38.3153 | 17522 | 7018 | 22276 | 9301 | 8410 | 90.4204 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 45.9726 | 41.2090 | 51.9814 | 51.1983 | 9169 | 13081 | 9156 | 8458 | 8386 | 99.1487 | |
| ciseli-custom | SNP | * | HG002complexvar | * | 95.9712 | 96.9985 | 94.9655 | 20.7202 | 731742 | 22643 | 718679 | 38100 | 8358 | 21.9370 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.8395 | 42.0033 | 50.4468 | 47.0151 | 8651 | 11945 | 8637 | 8484 | 8329 | 98.1730 | |
| mlin-fermikit | INDEL | * | * | het | 96.2161 | 96.8146 | 95.6251 | 53.1659 | 187949 | 6184 | 187516 | 8579 | 8282 | 96.5381 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 78.0403 | 92.7260 | 67.3704 | 39.0451 | 9650 | 757 | 18923 | 9165 | 8275 | 90.2891 | |