PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64051-64100 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | segdup | het | 98.3988 | 98.8030 | 97.9978 | 93.2216 | 11886 | 144 | 11845 | 242 | 6 | 2.4793 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9116 | 99.2110 | 98.6139 | 86.9408 | 503 | 4 | 498 | 7 | 6 | 85.7143 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 75.5393 | 80.5556 | 71.1111 | 90.6832 | 29 | 7 | 32 | 13 | 6 | 46.1538 | |
| qzeng-custom | SNP | tv | segdup | het | 97.9263 | 98.4679 | 97.3907 | 94.6360 | 5206 | 81 | 5188 | 139 | 6 | 4.3166 | |
| raldana-dualsentieon | INDEL | * | * | hetalt | 95.3681 | 91.1677 | 99.9742 | 56.5406 | 23008 | 2229 | 23230 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5713 | 99.3652 | 99.7783 | 74.4113 | 3600 | 23 | 3600 | 8 | 6 | 75.0000 | |
| raldana-dualsentieon | INDEL | * | map_l125_m1_e0 | * | 97.7814 | 97.1998 | 98.3701 | 84.9452 | 2048 | 59 | 2052 | 34 | 6 | 17.6471 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e0 | * | 97.8027 | 97.2222 | 98.3901 | 85.9597 | 2135 | 61 | 2139 | 35 | 6 | 17.1429 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e1 | * | 97.8083 | 97.2135 | 98.4105 | 86.0853 | 2163 | 62 | 2167 | 35 | 6 | 17.1429 | |
| jli-custom | INDEL | D16_PLUS | HG002complexvar | het | 97.1408 | 95.7543 | 98.5680 | 65.7400 | 1060 | 47 | 826 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6345 | 97.9145 | 99.3651 | 67.4587 | 939 | 20 | 939 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | D1_5 | HG002complexvar | het | 99.7322 | 99.5618 | 99.9033 | 54.7904 | 20674 | 91 | 20667 | 20 | 6 | 30.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6785 | 97.8849 | 99.4850 | 27.4595 | 1157 | 25 | 1159 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | het | 74.1746 | 87.2340 | 64.5161 | 91.9481 | 41 | 6 | 20 | 11 | 6 | 54.5455 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 96.0274 | 98.7593 | 93.4426 | 89.0578 | 1194 | 15 | 1197 | 84 | 6 | 7.1429 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 96.1316 | 98.7261 | 93.6699 | 89.5668 | 1240 | 16 | 1243 | 84 | 6 | 7.1429 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 96.1672 | 98.7382 | 93.7267 | 89.6330 | 1252 | 16 | 1255 | 84 | 6 | 7.1429 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 96.0523 | 98.2537 | 93.9474 | 90.3553 | 1069 | 19 | 1071 | 69 | 6 | 8.6957 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1968 | 98.3377 | 94.1472 | 90.8640 | 1124 | 19 | 1126 | 70 | 6 | 8.5714 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2418 | 98.3578 | 94.2149 | 90.9091 | 1138 | 19 | 1140 | 70 | 6 | 8.5714 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.3248 | 98.0720 | 92.7273 | 92.5454 | 763 | 15 | 765 | 60 | 6 | 10.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4186 | 97.3773 | 99.4823 | 27.6981 | 1151 | 31 | 1153 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.3738 | 93.6948 | 99.2105 | 23.7713 | 743 | 50 | 754 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002complexvar | homalt | 98.8800 | 100.0000 | 97.7848 | 70.4949 | 309 | 0 | 309 | 7 | 6 | 85.7143 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 84.9656 | 91.4894 | 79.3103 | 93.9959 | 43 | 4 | 23 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.7925 | 100.0000 | 76.6667 | 88.6792 | 23 | 0 | 23 | 7 | 6 | 85.7143 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.9052 | 93.4028 | 96.4567 | 80.9738 | 269 | 19 | 245 | 9 | 6 | 66.6667 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7219 | 98.3777 | 99.0685 | 77.8155 | 1516 | 25 | 1489 | 14 | 6 | 42.8571 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.8889 | 100.0000 | 80.0000 | 80.0000 | 24 | 0 | 24 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.2260 | 98.0100 | 98.4429 | 73.1662 | 591 | 12 | 569 | 9 | 6 | 66.6667 | |
| jmaeng-gatk | SNP | ti | segdup | * | 98.6795 | 99.2681 | 98.0979 | 93.0686 | 19394 | 143 | 19392 | 376 | 6 | 1.5957 | |
| jmaeng-gatk | SNP | tv | HG002compoundhet | homalt | 99.4223 | 99.0555 | 99.7918 | 42.9493 | 3356 | 32 | 3355 | 7 | 6 | 85.7143 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9011 | 98.5761 | 99.2282 | 89.6010 | 900 | 13 | 900 | 7 | 6 | 85.7143 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2612 | 99.0548 | 99.4685 | 84.3994 | 2620 | 25 | 2620 | 14 | 6 | 42.8571 | |
| jmaeng-gatk | SNP | tv | map_l125_m0_e0 | het | 78.5795 | 66.8939 | 95.2119 | 92.0071 | 2944 | 1457 | 2943 | 148 | 6 | 4.0541 | |
| jmaeng-gatk | SNP | tv | map_l150_m0_e0 | * | 71.1604 | 56.3967 | 96.3949 | 93.3607 | 2354 | 1820 | 2353 | 88 | 6 | 6.8182 | |
| jmaeng-gatk | SNP | tv | map_l150_m1_e0 | het | 83.3948 | 74.0426 | 95.4512 | 90.5818 | 5143 | 1803 | 5141 | 245 | 6 | 2.4490 | |
| jmaeng-gatk | SNP | tv | map_l150_m2_e0 | het | 83.9830 | 74.9448 | 95.5001 | 91.0642 | 5435 | 1817 | 5433 | 256 | 6 | 2.3438 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m0_e0 | * | 94.4444 | 94.1176 | 94.7735 | 91.6932 | 272 | 17 | 272 | 15 | 6 | 40.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_siren | homalt | 96.4427 | 94.0068 | 99.0081 | 73.9977 | 1098 | 70 | 1098 | 11 | 6 | 54.5455 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 61.7234 | 51.1628 | 77.7778 | 78.2258 | 22 | 21 | 21 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8378 | 99.7231 | 99.9528 | 67.2930 | 16928 | 47 | 16928 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8378 | 99.7231 | 99.9528 | 67.2930 | 16928 | 47 | 16928 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | * | map_l250_m1_e0 | homalt | 99.3477 | 98.9444 | 99.7544 | 84.2418 | 2437 | 26 | 2437 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m2_e0 | homalt | 99.3833 | 98.9948 | 99.7749 | 85.5202 | 2659 | 27 | 2659 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m2_e1 | homalt | 99.3906 | 99.0066 | 99.7775 | 85.5799 | 2691 | 27 | 2691 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.3229 | 99.3534 | 99.2923 | 66.7825 | 3227 | 21 | 3227 | 23 | 6 | 26.0870 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6032 | 99.8263 | 99.3810 | 56.4884 | 17820 | 31 | 17821 | 111 | 6 | 5.4054 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.8825 | 98.9969 | 98.7683 | 87.0977 | 1283 | 13 | 1283 | 16 | 6 | 37.5000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.6558 | 99.1774 | 98.1395 | 88.0655 | 844 | 7 | 844 | 16 | 6 | 37.5000 | |