PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2501-2550 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9390 | 64.2764 | 95.8149 | 73.3607 | 5405 | 3004 | 5403 | 236 | 65 | 27.5424 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 26.8074 | 23.6447 | 30.9468 | 56.6057 | 929 | 3000 | 925 | 2064 | 2051 | 99.3702 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| ckim-vqsr | SNP | tv | HG002complexvar | het | 98.9859 | 98.0150 | 99.9763 | 22.4456 | 147739 | 2992 | 147662 | 35 | 14 | 40.0000 | |
| qzeng-custom | SNP | tv | map_l100_m2_e1 | het | 88.6428 | 81.2273 | 97.5483 | 82.6203 | 12946 | 2992 | 12931 | 325 | 244 | 75.0769 | |
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 21.8358 | 0.0000 | 0.0000 | 835 | 2989 | 0 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 61.8938 | 45.0533 | 98.8388 | 35.9607 | 2450 | 2988 | 2128 | 25 | 22 | 88.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 44.4716 | 32.8160 | 68.9674 | 74.6267 | 1459 | 2987 | 1289 | 580 | 148 | 25.5172 | |
| astatham-gatk | SNP | ti | map_l100_m0_e0 | * | 92.5350 | 86.2891 | 99.7557 | 72.1287 | 18786 | 2985 | 18783 | 46 | 24 | 52.1739 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 83.2118 | 71.5131 | 99.4866 | 35.3667 | 7491 | 2984 | 7558 | 39 | 39 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 77.3563 | 63.1748 | 99.7477 | 25.6850 | 5114 | 2981 | 5140 | 13 | 13 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l100_m2_e0 | het | 88.5810 | 81.1371 | 97.5288 | 82.6321 | 12801 | 2976 | 12787 | 324 | 244 | 75.3086 | |
| anovak-vg | INDEL | D16_PLUS | * | * | 64.9199 | 56.1321 | 76.9701 | 52.6377 | 3808 | 2976 | 3780 | 1131 | 815 | 72.0601 | |
| qzeng-custom | INDEL | I1_5 | * | hetalt | 84.6275 | 73.4792 | 99.7637 | 61.8865 | 8226 | 2969 | 3378 | 8 | 6 | 75.0000 | |
| qzeng-custom | INDEL | I1_5 | HG002compoundhet | hetalt | 84.6325 | 73.4723 | 99.7902 | 54.7416 | 8212 | 2965 | 3329 | 7 | 5 | 71.4286 | |
| mlin-fermikit | SNP | tv | map_l125_m0_e0 | het | 48.9678 | 32.6289 | 98.0822 | 65.3700 | 1436 | 2965 | 1432 | 28 | 0 | 0.0000 | |
| qzeng-custom | SNP | tv | map_l100_m1_e0 | het | 88.3933 | 80.7745 | 97.5991 | 81.8251 | 12453 | 2964 | 12439 | 306 | 244 | 79.7386 | |
| anovak-vg | SNP | ti | map_l100_m2_e1 | het | 80.9356 | 90.4328 | 73.2435 | 73.3025 | 27998 | 2962 | 27782 | 10149 | 2220 | 21.8741 | |
| asubramanian-gatk | SNP | tv | map_l100_m0_e0 | homalt | 37.6187 | 23.1669 | 100.0000 | 87.8146 | 891 | 2955 | 891 | 0 | 0 | ||
| ciseli-custom | SNP | * | HG002complexvar | homalt | 96.2605 | 98.9760 | 93.6900 | 21.2638 | 285620 | 2955 | 278961 | 18788 | 7728 | 41.1326 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | * | 92.3506 | 90.1368 | 94.6759 | 61.0439 | 27005 | 2955 | 26887 | 1512 | 1502 | 99.3386 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 54.8776 | 37.8708 | 99.6098 | 30.9469 | 1800 | 2953 | 1787 | 7 | 7 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 57.8916 | 83.4278 | 44.3245 | 56.1428 | 14866 | 2953 | 14940 | 18766 | 18665 | 99.4618 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 72.4419 | 70.6939 | 74.2785 | 64.5876 | 7121 | 2952 | 7026 | 2433 | 2324 | 95.5199 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 33.8729 | 24.3264 | 55.7519 | 39.1474 | 948 | 2949 | 1735 | 1377 | 1147 | 83.2970 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 56.7821 | 0.0000 | 0.0000 | 3868 | 2944 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 34.0836 | 24.4547 | 56.2198 | 65.7568 | 953 | 2944 | 931 | 725 | 695 | 95.8621 | |
| gduggal-bwavard | SNP | tv | HG002complexvar | homalt | 98.3914 | 96.9047 | 99.9244 | 20.9085 | 92167 | 2944 | 89912 | 68 | 35 | 51.4706 | |
| anovak-vg | SNP | ti | map_l100_m2_e0 | het | 80.8461 | 90.4056 | 73.1149 | 73.2980 | 27684 | 2938 | 27470 | 10101 | 2208 | 21.8592 | |
| gduggal-snapfb | SNP | * | HG002complexvar | * | 99.1200 | 99.6105 | 98.6343 | 21.7486 | 751447 | 2938 | 752277 | 10416 | 1326 | 12.7304 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 64.8636 | 83.8324 | 52.8950 | 61.2756 | 15229 | 2937 | 15174 | 13513 | 12202 | 90.2982 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 64.8636 | 83.8324 | 52.8950 | 61.2756 | 15229 | 2937 | 15174 | 13513 | 12202 | 90.2982 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 68.0328 | 54.2991 | 91.0658 | 88.7322 | 3486 | 2934 | 3486 | 342 | 80 | 23.3918 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 68.0328 | 54.2991 | 91.0658 | 88.7322 | 3486 | 2934 | 3486 | 342 | 80 | 23.3918 | |
| gduggal-bwaplat | SNP | tv | map_l100_m0_e0 | het | 74.3090 | 59.3741 | 99.2822 | 90.5912 | 4288 | 2934 | 4288 | 31 | 10 | 32.2581 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 34.8549 | 24.7113 | 59.1245 | 71.3782 | 963 | 2934 | 959 | 663 | 642 | 96.8326 | |
| ckim-gatk | SNP | ti | map_l100_m0_e0 | homalt | 76.7317 | 62.2717 | 99.9381 | 70.4634 | 4841 | 2933 | 4841 | 3 | 2 | 66.6667 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.1186 | 81.3959 | 71.4838 | 54.5214 | 12828 | 2932 | 13489 | 5381 | 2743 | 50.9757 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 57.2013 | 57.5771 | 56.8303 | 44.8249 | 3978 | 2931 | 6053 | 4598 | 4136 | 89.9522 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 24.2451 | 16.1226 | 48.8616 | 65.3414 | 563 | 2929 | 558 | 584 | 571 | 97.7740 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.2098 | 85.2583 | 89.2527 | 52.9223 | 16934 | 2928 | 27995 | 3371 | 3181 | 94.3637 | |
| gduggal-bwaplat | SNP | * | map_l250_m1_e0 | het | 55.4141 | 38.4227 | 99.3482 | 97.7302 | 1827 | 2928 | 1829 | 12 | 3 | 25.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 62.9939 | 46.2118 | 98.9156 | 35.8827 | 2513 | 2925 | 2098 | 23 | 20 | 86.9565 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 81.2553 | 73.6695 | 90.5826 | 44.2627 | 8181 | 2924 | 2068 | 215 | 132 | 61.3953 | |
| jpowers-varprowl | INDEL | D16_PLUS | * | * | 60.4248 | 56.9575 | 64.3415 | 68.1361 | 3864 | 2920 | 3874 | 2147 | 2111 | 98.3232 | |
| ckim-gatk | INDEL | * | * | * | 99.2271 | 99.1551 | 99.2992 | 60.7185 | 341631 | 2911 | 341492 | 2410 | 1553 | 64.4398 | |
| mlin-fermikit | SNP | ti | HG002complexvar | homalt | 98.3813 | 98.4958 | 98.2669 | 18.8239 | 190554 | 2910 | 190572 | 3361 | 3261 | 97.0247 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.5291 | 86.9258 | 88.1409 | 52.6080 | 19341 | 2909 | 20149 | 2711 | 1465 | 54.0391 | |
| mlin-fermikit | INDEL | D6_15 | * | hetalt | 78.2531 | 64.4238 | 99.6427 | 35.0794 | 5266 | 2908 | 5298 | 19 | 18 | 94.7368 | |