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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15051-15100 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3046 | 99.1667 | 99.4429 | 87.9933 | 714 | 6 | 714 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.4429 | 99.1667 | 99.7207 | 68.4651 | 1428 | 12 | 1428 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | INDEL | * | segdup | homalt | 99.1667 | 99.1667 | 99.1667 | 93.6609 | 952 | 8 | 952 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5469 | 99.1667 | 99.9300 | 67.8732 | 1428 | 12 | 1428 | 1 | 0 | 0.0000 | |
| ckim-dragen | SNP | tv | map_l100_m2_e1 | het | 98.0614 | 99.1655 | 96.9816 | 75.2723 | 15805 | 133 | 15808 | 492 | 32 | 6.5041 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e1 | het | 98.9487 | 99.1652 | 98.7332 | 79.6403 | 20193 | 170 | 20187 | 259 | 23 | 8.8803 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e0 | * | 98.8866 | 99.1651 | 98.6097 | 70.4745 | 24824 | 209 | 24824 | 350 | 55 | 15.7143 | |
| dgrover-gatk | SNP | tv | map_l150_m1_e0 | het | 98.7950 | 99.1650 | 98.4277 | 80.3450 | 6888 | 58 | 6886 | 110 | 20 | 18.1818 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002complexvar | het | 99.3340 | 99.1643 | 99.5043 | 57.7801 | 18037 | 152 | 18065 | 90 | 80 | 88.8889 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.0670 | 99.1636 | 96.9944 | 39.3861 | 2134 | 18 | 2969 | 92 | 42 | 45.6522 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.6403 | 99.1633 | 75.3631 | 71.5296 | 17421 | 147 | 17540 | 5734 | 127 | 2.2149 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3017 | 99.1632 | 99.4406 | 55.8914 | 711 | 6 | 711 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8186 | 99.1632 | 98.4765 | 57.3034 | 711 | 6 | 711 | 11 | 10 | 90.9091 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7500 | 99.1632 | 98.3402 | 56.4720 | 711 | 6 | 711 | 12 | 11 | 91.6667 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | homalt | 99.5206 | 99.1629 | 99.8808 | 71.2164 | 11728 | 99 | 11728 | 14 | 10 | 71.4286 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | * | 99.4499 | 99.1625 | 99.7391 | 58.6120 | 32441 | 274 | 32494 | 85 | 69 | 81.1765 | |
| jpowers-varprowl | SNP | tv | HG002complexvar | * | 99.3235 | 99.1623 | 99.4852 | 24.4097 | 244090 | 2062 | 244285 | 1264 | 803 | 63.5285 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3191 | 99.1623 | 99.4764 | 77.1586 | 947 | 8 | 950 | 5 | 1 | 20.0000 | |
| raldana-dualsentieon | SNP | ti | map_l125_m1_e0 | * | 99.1157 | 99.1614 | 99.0701 | 69.2148 | 29089 | 246 | 29085 | 273 | 11 | 4.0293 | |
| hfeng-pmm3 | SNP | ti | map_l250_m2_e0 | * | 99.1712 | 99.1613 | 99.1811 | 88.8122 | 4966 | 42 | 4966 | 41 | 5 | 12.1951 | |
| hfeng-pmm2 | SNP | ti | map_l250_m2_e0 | * | 98.8259 | 99.1613 | 98.4927 | 89.9448 | 4966 | 42 | 4966 | 76 | 9 | 11.8421 | |
| egarrison-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4287 | 99.1605 | 99.6983 | 57.8100 | 55164 | 467 | 55180 | 167 | 88 | 52.6946 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4090 | 99.1601 | 99.6591 | 54.8028 | 25146 | 213 | 25144 | 86 | 60 | 69.7674 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3929 | 99.1600 | 99.6269 | 75.2923 | 5076 | 43 | 5074 | 19 | 13 | 68.4211 | |
| ghariani-varprowl | SNP | * | map_l100_m2_e1 | het | 97.8415 | 99.1599 | 96.5577 | 75.0527 | 46504 | 394 | 46507 | 1658 | 256 | 15.4403 | |
| eyeh-varpipe | INDEL | I1_5 | func_cds | homalt | 99.1798 | 99.1597 | 99.2000 | 23.7805 | 118 | 1 | 124 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | func_cds | homalt | 99.5781 | 99.1597 | 100.0000 | 31.3953 | 118 | 1 | 118 | 0 | 0 | ||
| ndellapenna-hhga | SNP | tv | map_siren | * | 99.4997 | 99.1596 | 99.8422 | 55.1910 | 45544 | 386 | 45544 | 72 | 30 | 41.6667 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4476 | 99.1594 | 99.7375 | 38.8443 | 3421 | 29 | 3420 | 9 | 2 | 22.2222 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3613 | 99.1592 | 99.5643 | 51.5120 | 3656 | 31 | 3656 | 16 | 13 | 81.2500 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.5072 | 99.1591 | 99.8579 | 31.1980 | 1415 | 12 | 1405 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | ti | HG002compoundhet | * | 97.7572 | 99.1589 | 96.3946 | 39.7398 | 17331 | 147 | 12860 | 481 | 101 | 20.9979 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e0 | het | 99.2203 | 99.1589 | 99.2819 | 76.4022 | 7191 | 61 | 7189 | 52 | 5 | 9.6154 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002complexvar | het | 99.5309 | 99.1588 | 99.9057 | 57.5378 | 18036 | 153 | 18015 | 17 | 6 | 35.2941 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4201 | 99.1588 | 99.6829 | 84.8446 | 943 | 8 | 943 | 3 | 1 | 33.3333 | |
| cchapple-custom | INDEL | D1_5 | * | * | 99.4223 | 99.1584 | 99.6877 | 55.8052 | 145510 | 1235 | 145535 | 456 | 300 | 65.7895 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1334 | 99.1581 | 99.1088 | 47.3320 | 2120 | 18 | 2113 | 19 | 1 | 5.2632 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4171 | 99.1580 | 99.6775 | 58.2394 | 2473 | 21 | 2473 | 8 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4571 | 99.1580 | 99.7580 | 57.7755 | 2473 | 21 | 2473 | 6 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3508 | 99.1580 | 99.5443 | 63.5414 | 3062 | 26 | 3058 | 14 | 2 | 14.2857 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.4316 | 99.1580 | 99.7066 | 64.6054 | 3062 | 26 | 3059 | 9 | 2 | 22.2222 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5772 | 99.1580 | 100.0000 | 57.3253 | 2473 | 21 | 2473 | 0 | 0 | ||
| rpoplin-dv42 | SNP | * | map_l100_m2_e1 | het | 99.2783 | 99.1577 | 99.3992 | 66.0072 | 46503 | 395 | 46491 | 281 | 142 | 50.5338 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4577 | 99.1576 | 99.7596 | 63.2532 | 17420 | 148 | 17430 | 42 | 21 | 50.0000 | |
| ckim-dragen | INDEL | * | * | * | 99.1359 | 99.1574 | 99.1143 | 60.3466 | 341639 | 2903 | 341303 | 3050 | 2010 | 65.9016 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5445 | 99.1568 | 99.9353 | 61.6132 | 10819 | 92 | 10815 | 7 | 5 | 71.4286 | |
| ltrigg-rtg2 | INDEL | * | * | het | 99.3348 | 99.1568 | 99.5135 | 56.1055 | 192496 | 1637 | 191657 | 937 | 230 | 24.5464 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 23.6246 | 235 | 2 | 236 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 39.9497 | 235 | 2 | 239 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 23.6246 | 235 | 2 | 236 | 0 | 0 | ||