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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75051-75100 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | * | map_l250_m1_e0 | het | 97.9332 | 98.6540 | 97.2228 | 90.1965 | 4691 | 64 | 4691 | 134 | 24 | 17.9104 | |
| qzeng-custom | SNP | ti | map_l150_m0_e0 | * | 73.3597 | 60.0560 | 94.2346 | 92.3897 | 4721 | 3140 | 4691 | 287 | 246 | 85.7143 | |
| ckim-dragen | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.7237 | 99.8934 | 99.5546 | 42.4719 | 4684 | 5 | 4694 | 21 | 2 | 9.5238 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 78.0369 | 75.9494 | 80.2425 | 77.9111 | 4620 | 1463 | 4699 | 1157 | 1067 | 92.2213 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 76.6099 | 94.2733 | 64.5210 | 69.8327 | 4560 | 277 | 4701 | 2585 | 206 | 7.9691 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.3543 | 98.5726 | 92.3394 | 77.6916 | 4696 | 68 | 4701 | 390 | 34 | 8.7180 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | * | 98.5836 | 98.0175 | 99.1563 | 57.7225 | 4697 | 95 | 4701 | 40 | 39 | 97.5000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1521 | 97.1677 | 99.1567 | 66.2396 | 4700 | 137 | 4703 | 40 | 25 | 62.5000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1361 | 98.7615 | 99.5135 | 67.2304 | 4705 | 59 | 4705 | 23 | 10 | 43.4783 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | het | 60.4981 | 88.2511 | 46.0244 | 58.9093 | 3613 | 481 | 4706 | 5519 | 5300 | 96.0319 | |
| qzeng-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.4331 | 98.7825 | 96.1201 | 76.9651 | 4706 | 58 | 4707 | 190 | 22 | 11.5789 | |
| jpowers-varprowl | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.6892 | 98.3627 | 95.0717 | 77.9691 | 4686 | 78 | 4707 | 244 | 55 | 22.5410 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.4327 | 99.6801 | 95.2844 | 41.6647 | 4674 | 15 | 4708 | 233 | 3 | 1.2876 | |
| qzeng-custom | SNP | tv | map_l125_m0_e0 | * | 81.4498 | 71.1657 | 95.2082 | 88.9716 | 4719 | 1912 | 4709 | 237 | 201 | 84.8101 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2415 | 98.8665 | 99.6193 | 67.1895 | 4710 | 54 | 4710 | 18 | 5 | 27.7778 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0016 | 98.8665 | 99.1370 | 66.6503 | 4710 | 54 | 4710 | 41 | 9 | 21.9512 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | * | 98.6793 | 98.2053 | 99.1579 | 57.8639 | 4706 | 86 | 4710 | 40 | 39 | 97.5000 | |
| gduggal-snapfb | SNP | ti | map_l250_m2_e0 | * | 94.5805 | 94.0895 | 95.0767 | 89.6969 | 4712 | 296 | 4712 | 244 | 127 | 52.0492 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.7513 | 98.3837 | 85.9566 | 77.5029 | 4687 | 77 | 4713 | 770 | 56 | 7.2727 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1690 | 98.9505 | 99.3886 | 67.1606 | 4714 | 50 | 4714 | 29 | 10 | 34.4828 | |
| ciseli-custom | SNP | tv | map_l150_m2_e0 | het | 71.3414 | 65.0579 | 78.9685 | 85.0033 | 4718 | 2534 | 4716 | 1256 | 50 | 3.9809 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.6201 | 99.3057 | 99.9365 | 31.9250 | 4720 | 33 | 4718 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2427 | 99.0344 | 99.4519 | 67.0189 | 4718 | 46 | 4718 | 26 | 9 | 34.6154 | |
| anovak-vg | SNP | tv | map_l125_m1_e0 | homalt | 88.9946 | 80.7338 | 99.1387 | 66.3699 | 4731 | 1129 | 4719 | 41 | 30 | 73.1707 | |
| bgallagher-sentieon | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2848 | 99.0764 | 99.4941 | 66.4545 | 4720 | 44 | 4720 | 24 | 5 | 20.8333 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.6168 | 96.8493 | 96.3855 | 66.9947 | 4703 | 153 | 4720 | 177 | 125 | 70.6215 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 57.7607 | 47.6176 | 73.3945 | 69.4184 | 3198 | 3518 | 4720 | 1711 | 398 | 23.2613 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.7313 | 74.9840 | 78.5619 | 87.2292 | 4676 | 1560 | 4720 | 1288 | 113 | 8.7733 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5395 | 97.2611 | 99.8520 | 63.6434 | 4723 | 133 | 4723 | 7 | 5 | 71.4286 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2750 | 99.3899 | 99.1604 | 41.1634 | 4724 | 29 | 4724 | 40 | 40 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3647 | 97.6018 | 99.1396 | 66.6853 | 4721 | 116 | 4724 | 41 | 16 | 39.0244 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 71.3299 | 69.4719 | 73.2899 | 58.1798 | 3302 | 1451 | 4725 | 1722 | 1302 | 75.6098 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1597 | 98.9715 | 99.3486 | 67.2313 | 4715 | 49 | 4728 | 31 | 4 | 12.9032 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8715 | 99.8106 | 97.9499 | 33.5489 | 4744 | 9 | 4730 | 99 | 97 | 97.9798 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6241 | 97.4259 | 99.8523 | 63.8155 | 4731 | 125 | 4731 | 7 | 6 | 85.7143 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5824 | 99.3478 | 97.8288 | 50.3389 | 4722 | 31 | 4731 | 105 | 95 | 90.4762 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5026 | 97.4692 | 99.5582 | 62.4506 | 1502 | 39 | 4732 | 21 | 16 | 76.1905 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.2799 | 97.7540 | 96.8105 | 66.5390 | 4657 | 107 | 4735 | 156 | 5 | 3.2051 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.5167 | 99.4332 | 99.6003 | 68.5145 | 4737 | 27 | 4735 | 19 | 7 | 36.8421 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.5224 | 99.6844 | 91.6941 | 50.1544 | 4738 | 15 | 4736 | 429 | 428 | 99.7669 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2976 | 99.4123 | 99.1832 | 67.8581 | 4736 | 28 | 4736 | 39 | 8 | 20.5128 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5273 | 99.6634 | 99.3915 | 39.2247 | 4737 | 16 | 4737 | 29 | 28 | 96.5517 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6772 | 97.5494 | 99.8314 | 64.0612 | 4737 | 119 | 4737 | 8 | 5 | 62.5000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5170 | 99.7054 | 99.3293 | 39.8437 | 4739 | 14 | 4739 | 32 | 32 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6778 | 97.5906 | 99.7894 | 64.3361 | 4739 | 117 | 4739 | 10 | 8 | 80.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 51.3203 | 40.1741 | 71.0262 | 37.0164 | 969 | 1443 | 4741 | 1934 | 1923 | 99.4312 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0758 | 97.7052 | 94.4998 | 74.6425 | 4726 | 111 | 4742 | 276 | 80 | 28.9855 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | het | 61.6520 | 44.9730 | 97.9955 | 67.0300 | 4746 | 5807 | 4742 | 97 | 1 | 1.0309 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | * | 86.8868 | 95.2476 | 79.8754 | 91.6627 | 4770 | 238 | 4743 | 1195 | 72 | 6.0251 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0972 | 99.7896 | 96.4613 | 40.7376 | 4743 | 10 | 4743 | 174 | 174 | 100.0000 | |