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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47851-47900 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D6_15 | map_l100_m0_e0 | het | 95.9350 | 98.3333 | 93.6508 | 91.5323 | 59 | 1 | 59 | 4 | 1 | 25.0000 | |
| jli-custom | INDEL | D6_15 | map_l100_m0_e0 | het | 95.9350 | 98.3333 | 93.6508 | 88.2022 | 59 | 1 | 59 | 4 | 1 | 25.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m0_e0 | het | 95.9350 | 98.3333 | 93.6508 | 89.9200 | 59 | 1 | 59 | 4 | 1 | 25.0000 | |
| gduggal-snapplat | SNP | * | map_l100_m0_e0 | het | 93.0063 | 92.3697 | 93.6518 | 83.5542 | 19587 | 1618 | 19606 | 1329 | 738 | 55.5305 | |
| jpowers-varprowl | INDEL | D1_5 | map_l125_m2_e1 | het | 94.7368 | 95.8442 | 93.6548 | 88.7251 | 738 | 32 | 738 | 50 | 27 | 54.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m0_e0 | het | 94.3489 | 95.0495 | 93.6585 | 92.6126 | 192 | 10 | 192 | 13 | 5 | 38.4615 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.9735 | 92.2961 | 93.6609 | 72.5054 | 611 | 51 | 591 | 40 | 14 | 35.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.3912 | 83.6820 | 93.6620 | 67.7273 | 400 | 78 | 399 | 27 | 22 | 81.4815 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.0645 | 96.5066 | 93.6649 | 54.5130 | 1326 | 48 | 19117 | 1293 | 1186 | 91.7247 | |
| jpowers-varprowl | INDEL | D1_5 | map_l125_m1_e0 | het | 94.6866 | 95.7300 | 93.6658 | 88.0554 | 695 | 31 | 695 | 47 | 26 | 55.3191 | |
| cchapple-custom | SNP | tv | map_l125_m2_e0 | het | 95.6050 | 97.6250 | 93.6669 | 79.2937 | 10194 | 248 | 10220 | 691 | 117 | 16.9320 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.4739 | 99.4515 | 93.6694 | 63.2423 | 3989 | 22 | 3995 | 270 | 19 | 7.0370 | |
| 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 | |
| gduggal-bwavard | INDEL | I16_PLUS | HG002complexvar | homalt | 81.9370 | 72.8155 | 93.6709 | 46.7416 | 225 | 84 | 222 | 15 | 7 | 46.6667 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.4878 | 95.3191 | 93.6709 | 57.5649 | 448 | 22 | 444 | 30 | 29 | 96.6667 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | * | 96.2112 | 98.8920 | 93.6720 | 80.3444 | 46679 | 523 | 46673 | 3153 | 240 | 7.6118 | |
| jpowers-varprowl | SNP | ti | map_l250_m1_e0 | het | 93.7195 | 93.7668 | 93.6722 | 91.9387 | 2783 | 185 | 2783 | 188 | 54 | 28.7234 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.1125 | 83.1756 | 93.6725 | 88.6078 | 791 | 160 | 755 | 51 | 22 | 43.1373 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.2696 | 96.9214 | 93.6732 | 86.2372 | 1763 | 56 | 1525 | 103 | 74 | 71.8447 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.2696 | 96.9214 | 93.6732 | 86.2372 | 1763 | 56 | 1525 | 103 | 74 | 71.8447 | |
| ghariani-varprowl | SNP | tv | map_l150_m1_e0 | het | 96.2185 | 98.9058 | 93.6733 | 82.5202 | 6870 | 76 | 6870 | 464 | 74 | 15.9483 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 95.5377 | 97.4763 | 93.6747 | 94.4249 | 309 | 8 | 311 | 21 | 1 | 4.7619 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.5076 | 97.4127 | 93.6755 | 70.3048 | 753 | 20 | 1022 | 69 | 54 | 78.2609 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.7724 | 88.0435 | 93.6759 | 87.8424 | 243 | 33 | 237 | 16 | 1 | 6.2500 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 91.9743 | 90.3292 | 93.6805 | 71.4710 | 58200 | 6231 | 60215 | 4062 | 3944 | 97.0950 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.6420 | 95.6229 | 93.6811 | 78.6041 | 18722 | 857 | 18784 | 1267 | 139 | 10.9708 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.6420 | 95.6229 | 93.6811 | 78.6041 | 18722 | 857 | 18784 | 1267 | 139 | 10.9708 | |
| gduggal-snapfb | INDEL | D1_5 | map_l250_m2_e0 | * | 95.1872 | 96.7391 | 93.6842 | 95.1568 | 178 | 6 | 178 | 12 | 1 | 8.3333 | |
| gduggal-bwafb | INDEL | D6_15 | HG002complexvar | hetalt | 88.4177 | 83.7117 | 93.6842 | 66.0714 | 848 | 165 | 178 | 12 | 12 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | * | homalt | 79.0390 | 68.3536 | 93.6842 | 50.1966 | 1067 | 494 | 1068 | 72 | 53 | 73.6111 | |
| jmaeng-gatk | INDEL | D6_15 | segdup | het | 95.1872 | 96.7391 | 93.6842 | 96.4932 | 89 | 3 | 89 | 6 | 0 | 0.0000 | |
| jlack-gatk | SNP | ti | map_l100_m1_e0 | het | 96.3792 | 99.2318 | 93.6859 | 77.4968 | 29712 | 230 | 29705 | 2002 | 175 | 8.7413 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | * | 92.9673 | 92.2577 | 93.6879 | 54.6199 | 30779 | 2583 | 30650 | 2065 | 1585 | 76.7554 | |
| cchapple-custom | SNP | tv | map_l125_m2_e1 | het | 95.6281 | 97.6500 | 93.6882 | 79.3490 | 10305 | 248 | 10331 | 696 | 117 | 16.8103 | |
| ciseli-custom | SNP | * | HG002complexvar | homalt | 96.2605 | 98.9760 | 93.6900 | 21.2638 | 285620 | 2955 | 278961 | 18788 | 7728 | 41.1326 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 95.6989 | 97.7918 | 93.6937 | 94.1905 | 310 | 7 | 312 | 21 | 1 | 4.7619 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | HG002complexvar | hetalt | 90.0287 | 86.6397 | 93.6937 | 56.8932 | 214 | 33 | 208 | 14 | 14 | 100.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.7690 | 74.1259 | 93.6937 | 90.8036 | 106 | 37 | 104 | 7 | 5 | 71.4286 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.3021 | 99.0596 | 93.6939 | 64.5457 | 10007 | 95 | 10029 | 675 | 110 | 16.2963 | |
| gduggal-bwafb | INDEL | * | HG002complexvar | hetalt | 85.9574 | 79.3998 | 93.6957 | 80.8679 | 2937 | 762 | 1293 | 87 | 84 | 96.5517 | |
| jpowers-varprowl | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 81.7040 | 72.4326 | 93.6973 | 66.4963 | 22281 | 8480 | 22240 | 1496 | 1307 | 87.3663 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 24.9746 | 14.4074 | 93.6975 | 63.9939 | 186 | 1105 | 223 | 15 | 14 | 93.3333 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.1771 | 98.7900 | 93.6989 | 90.7298 | 1143 | 14 | 1145 | 77 | 6 | 7.7922 | |
| jlack-gatk | SNP | ti | map_l150_m1_e0 | * | 96.1043 | 98.6353 | 93.7000 | 82.0564 | 19443 | 269 | 19439 | 1307 | 125 | 9.5639 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 84.8609 | 77.5453 | 93.7004 | 78.4378 | 21463 | 6215 | 21508 | 1446 | 158 | 10.9267 | |
| ghariani-varprowl | INDEL | I6_15 | * | homalt | 79.0493 | 68.3603 | 93.7006 | 43.2628 | 4265 | 1974 | 4269 | 287 | 252 | 87.8049 | |
| gduggal-snapplat | INDEL | I6_15 | * | hetalt | 52.6793 | 36.6390 | 93.7008 | 46.4917 | 3133 | 5418 | 3094 | 208 | 167 | 80.2885 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 0.0000 | 0.0000 | 93.7008 | 92.4584 | 0 | 0 | 119 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 71.0987 | 57.2816 | 93.7008 | 58.7662 | 118 | 88 | 119 | 8 | 2 | 25.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.6535 | 99.7967 | 93.7023 | 60.6607 | 491 | 1 | 491 | 33 | 31 | 93.9394 | |