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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7651-7700 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | * | map_l125_m0_e0 | het | 91.2008 | 97.7811 | 85.4502 | 85.0594 | 12383 | 281 | 12251 | 2086 | 87 | 4.1707 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | het | 94.3634 | 98.1060 | 90.8959 | 79.1108 | 15125 | 292 | 15076 | 1510 | 87 | 5.7616 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.4262 | 94.1386 | 98.8277 | 32.4619 | 9797 | 610 | 9779 | 116 | 87 | 75.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002complexvar | het | 50.6283 | 38.3459 | 74.4868 | 43.8221 | 255 | 410 | 254 | 87 | 87 | 100.0000 | |
| gduggal-bwaplat | SNP | * | map_l100_m2_e1 | * | 82.9577 | 71.1789 | 99.4078 | 82.2985 | 53197 | 21540 | 53209 | 317 | 87 | 27.4448 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.2309 | 99.3718 | 87.8049 | 80.7052 | 19456 | 123 | 18720 | 2600 | 87 | 3.3462 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.2309 | 99.3718 | 87.8049 | 80.7052 | 19456 | 123 | 18720 | 2600 | 87 | 3.3462 | |
| rpoplin-dv42 | SNP | tv | HG002complexvar | * | 99.9096 | 99.8615 | 99.9577 | 21.9240 | 245811 | 341 | 245702 | 104 | 87 | 83.6538 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4857 | 97.5614 | 99.4277 | 64.2143 | 17723 | 443 | 17720 | 102 | 87 | 85.2941 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4857 | 97.5614 | 99.4277 | 64.2143 | 17723 | 443 | 17720 | 102 | 87 | 85.2941 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3482 | 99.9034 | 98.7991 | 36.8548 | 7240 | 7 | 7240 | 88 | 87 | 98.8636 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.0250 | 99.3414 | 96.7430 | 63.3526 | 2715 | 18 | 2703 | 91 | 87 | 95.6044 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0301 | 99.8948 | 98.1803 | 50.4508 | 4748 | 5 | 4748 | 88 | 87 | 98.8636 | |
| dgrover-gatk | SNP | ti | * | het | 99.9394 | 99.9568 | 99.9221 | 18.8587 | 1281337 | 554 | 1281283 | 999 | 87 | 8.7087 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 90.5907 | 83.7697 | 98.6209 | 32.2653 | 6751 | 1308 | 7151 | 100 | 87 | 87.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 90.5907 | 83.7697 | 98.6209 | 32.2653 | 6751 | 1308 | 7151 | 100 | 87 | 87.0000 | |
| ckim-isaac | INDEL | I1_5 | HG002complexvar | hetalt | 81.8382 | 73.1170 | 92.9216 | 55.9731 | 1262 | 464 | 1339 | 102 | 87 | 85.2941 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.6555 | 81.5055 | 88.0587 | 71.2392 | 1256 | 285 | 1261 | 171 | 87 | 50.8772 | |
| eyeh-varpipe | INDEL | C1_5 | HG002compoundhet | * | 90.1057 | 100.0000 | 81.9930 | 83.6384 | 1 | 0 | 469 | 103 | 87 | 84.4660 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.6889 | 92.8520 | 96.5999 | 48.0063 | 2559 | 197 | 2557 | 90 | 87 | 96.6667 | |
| jli-custom | SNP | ti | * | het | 99.9331 | 99.9539 | 99.9123 | 17.4772 | 1281300 | 591 | 1281266 | 1125 | 87 | 7.7333 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9182 | 98.0817 | 99.7690 | 70.7759 | 63195 | 1236 | 63064 | 146 | 87 | 59.5890 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e1 | homalt | 73.6413 | 72.8495 | 74.4505 | 79.6193 | 271 | 101 | 271 | 93 | 87 | 93.5484 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 78.7955 | 87.4652 | 71.6895 | 43.9898 | 314 | 45 | 314 | 124 | 87 | 70.1613 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8668 | 98.5050 | 86.0668 | 52.0529 | 593 | 9 | 593 | 96 | 87 | 90.6250 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.8385 | 93.1558 | 98.6804 | 28.6536 | 6683 | 491 | 6730 | 90 | 87 | 96.6667 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7317 | 98.1043 | 79.3427 | 59.5442 | 207 | 4 | 338 | 88 | 87 | 98.8636 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | homalt | 91.9372 | 85.5178 | 99.3987 | 57.5594 | 15359 | 2601 | 15207 | 92 | 87 | 94.5652 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.3454 | 95.7944 | 92.9397 | 77.9289 | 1435 | 63 | 1448 | 110 | 87 | 79.0909 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9665 | 94.7838 | 95.1498 | 73.0488 | 2017 | 111 | 2001 | 102 | 87 | 85.2941 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | homalt | 97.0698 | 99.7438 | 94.5355 | 72.0279 | 1557 | 4 | 1557 | 90 | 87 | 96.6667 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | het | 93.6780 | 98.7414 | 89.1086 | 85.4382 | 8159 | 104 | 8157 | 997 | 87 | 8.7262 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7194 | 96.0089 | 99.4918 | 41.3653 | 19774 | 822 | 19775 | 101 | 87 | 86.1386 | |
| ckim-dragen | SNP | ti | map_l100_m1_e0 | het | 98.1230 | 99.2485 | 97.0227 | 71.3768 | 29717 | 225 | 29720 | 912 | 87 | 9.5395 | |
| ckim-dragen | SNP | ti | map_l100_m2_e0 | het | 98.1149 | 99.2554 | 97.0004 | 73.1660 | 30394 | 228 | 30397 | 940 | 87 | 9.2553 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.8331 | 93.3976 | 58.3587 | 78.4954 | 8530 | 603 | 8633 | 6160 | 87 | 1.4123 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.8331 | 93.3976 | 58.3587 | 78.4954 | 8530 | 603 | 8633 | 6160 | 87 | 1.4123 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9081 | 96.5168 | 99.3401 | 63.4667 | 15517 | 560 | 15655 | 104 | 87 | 83.6538 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9081 | 96.5168 | 99.3401 | 63.4667 | 15517 | 560 | 15655 | 104 | 87 | 83.6538 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 29.0131 | 33.3333 | 25.6842 | 96.3865 | 1 | 2 | 122 | 353 | 87 | 24.6459 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0407 | 99.9158 | 98.1807 | 50.4457 | 4749 | 4 | 4749 | 88 | 87 | 98.8636 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 53.0788 | 81.5710 | 39.3382 | 71.0021 | 540 | 122 | 642 | 990 | 87 | 8.7879 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | * | 95.6186 | 97.4255 | 93.8776 | 91.4090 | 7682 | 203 | 7682 | 501 | 87 | 17.3653 | |
| ghariani-varprowl | SNP | tv | map_l100_m0_e0 | * | 97.0755 | 98.5204 | 95.6724 | 76.1776 | 10920 | 164 | 10921 | 494 | 87 | 17.6113 | |
| gduggal-snapvard | SNP | * | map_l250_m1_e0 | het | 81.0291 | 96.2566 | 69.9614 | 91.9347 | 4577 | 178 | 4530 | 1945 | 87 | 4.4730 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 58.9132 | 46.9890 | 78.9474 | 83.7848 | 1662 | 1875 | 1725 | 460 | 86 | 18.6957 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 64.8045 | 74.3750 | 57.4163 | 84.4610 | 119 | 41 | 120 | 89 | 86 | 96.6292 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 77.6408 | 64.0764 | 98.4903 | 40.8685 | 6712 | 3763 | 6263 | 96 | 86 | 89.5833 | |
| qzeng-custom | SNP | ti | HG002compoundhet | * | 98.4045 | 98.1577 | 98.6526 | 40.8633 | 17156 | 322 | 17719 | 242 | 86 | 35.5372 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | * | 67.6335 | 55.1825 | 87.3403 | 98.0910 | 756 | 614 | 752 | 109 | 86 | 78.8991 | |