PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60601-60650 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8763 | 98.9362 | 93.0000 | 62.1928 | 744 | 8 | 744 | 56 | 55 | 98.2143 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.8778 | 94.5946 | 97.1963 | 63.5434 | 210 | 12 | 208 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.8781 | 99.0512 | 92.9019 | 82.4220 | 522 | 5 | 445 | 34 | 34 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.8784 | 97.1098 | 94.6779 | 65.0000 | 336 | 10 | 338 | 19 | 4 | 21.0526 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.8792 | 96.9561 | 94.8260 | 86.0126 | 4109 | 129 | 4142 | 226 | 11 | 4.8673 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m2_e1 | het | 95.8801 | 94.8148 | 96.9697 | 86.5990 | 128 | 7 | 128 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | hetalt | 95.8808 | 94.4732 | 97.3310 | 25.3652 | 547 | 32 | 547 | 15 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | HG002complexvar | het | 95.8810 | 94.8801 | 96.9032 | 52.4432 | 43846 | 2366 | 43401 | 1387 | 1299 | 93.6554 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e1 | homalt | 95.8810 | 92.6620 | 99.3317 | 77.1434 | 1187 | 94 | 1189 | 8 | 5 | 62.5000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.8812 | 93.5484 | 98.3333 | 84.2520 | 58 | 4 | 59 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | hetalt | 95.8824 | 94.5476 | 97.2554 | 25.0447 | 815 | 47 | 815 | 23 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.8836 | 92.6404 | 99.3621 | 26.9063 | 4305 | 342 | 4829 | 31 | 30 | 96.7742 | |
| gduggal-snapvard | SNP | tv | map_siren | * | 95.8840 | 96.8735 | 94.9146 | 68.0322 | 44494 | 1436 | 44271 | 2372 | 211 | 8.8955 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | het | 95.8851 | 93.1857 | 98.7455 | 80.3036 | 547 | 40 | 551 | 7 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | * | func_cds | * | 95.8862 | 94.1573 | 97.6798 | 38.6040 | 419 | 26 | 421 | 10 | 8 | 80.0000 | |
| gduggal-bwaplat | INDEL | * | segdup | homalt | 95.8873 | 92.2917 | 99.7745 | 93.8089 | 886 | 74 | 885 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | * | 95.8880 | 94.8263 | 96.9738 | 65.9095 | 11602 | 633 | 11600 | 362 | 359 | 99.1713 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.8883 | 93.1278 | 98.8175 | 40.7349 | 15557 | 1148 | 16463 | 197 | 178 | 90.3553 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.8883 | 93.1278 | 98.8175 | 40.7349 | 15557 | 1148 | 16463 | 197 | 178 | 90.3553 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | * | 95.8895 | 95.8869 | 95.8922 | 92.8591 | 746 | 32 | 747 | 32 | 5 | 15.6250 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.8904 | 94.5946 | 97.2222 | 86.4151 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.8904 | 94.5946 | 97.2222 | 60.8696 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.8904 | 94.5946 | 97.2222 | 88.3871 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | * | map_l250_m2_e1 | * | 95.8904 | 94.5946 | 97.2222 | 95.7558 | 315 | 18 | 315 | 9 | 3 | 33.3333 | |
| gduggal-bwafb | INDEL | D6_15 | map_l125_m2_e1 | homalt | 95.8904 | 94.5946 | 97.2222 | 91.6473 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.8904 | 94.5946 | 97.2222 | 80.9524 | 70 | 4 | 70 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.8904 | 94.5946 | 97.2222 | 61.2903 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_l100_m1_e0 | * | 95.8904 | 92.1053 | 100.0000 | 80.2734 | 105 | 9 | 101 | 0 | 0 | ||
| ckim-dragen | INDEL | D6_15 | map_l125_m2_e1 | homalt | 95.8904 | 94.5946 | 97.2222 | 91.1548 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.8904 | 94.5946 | 97.2222 | 86.4151 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.8904 | 94.5946 | 97.2222 | 60.8696 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m0_e0 | homalt | 95.8904 | 94.5946 | 97.2222 | 84.3137 | 140 | 8 | 140 | 4 | 1 | 25.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | segdup | het | 95.8904 | 100.0000 | 92.1053 | 95.6867 | 37 | 0 | 35 | 3 | 0 | 0.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.8904 | 94.5946 | 97.2222 | 86.4662 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.8904 | 94.5946 | 97.2222 | 60.0000 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.8906 | 94.5652 | 97.2537 | 40.0019 | 6351 | 365 | 6268 | 177 | 104 | 58.7571 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.8914 | 94.3741 | 97.4582 | 84.3416 | 1342 | 80 | 1342 | 35 | 25 | 71.4286 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 95.8927 | 93.7179 | 98.1709 | 38.9030 | 11129 | 746 | 11110 | 207 | 127 | 61.3527 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.8932 | 93.9638 | 97.9036 | 75.4630 | 467 | 30 | 467 | 10 | 10 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_l150_m0_e0 | homalt | 95.8935 | 92.6114 | 99.4168 | 85.4187 | 2557 | 204 | 2557 | 15 | 7 | 46.6667 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8936 | 93.4498 | 98.4686 | 80.8504 | 642 | 45 | 643 | 10 | 6 | 60.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | * | * | 95.8942 | 93.7431 | 98.1463 | 72.1669 | 5978 | 399 | 5983 | 113 | 95 | 84.0708 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8948 | 95.1662 | 96.6346 | 75.0898 | 630 | 32 | 603 | 21 | 15 | 71.4286 | |
| jpowers-varprowl | SNP | tv | map_l125_m0_e0 | * | 95.8974 | 95.8830 | 95.9119 | 81.8721 | 6358 | 273 | 6358 | 271 | 70 | 25.8303 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.8975 | 95.7372 | 96.0584 | 69.6019 | 4649 | 207 | 4606 | 189 | 80 | 42.3280 | |
| ckim-isaac | SNP | ti | HG002complexvar | homalt | 95.8992 | 92.1386 | 99.9798 | 16.1839 | 178255 | 15209 | 178286 | 36 | 29 | 80.5556 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.9006 | 93.9173 | 97.9695 | 71.5112 | 386 | 25 | 386 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l250_m2_e0 | het | 95.9016 | 96.6942 | 95.1220 | 94.7771 | 117 | 4 | 117 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.9022 | 93.2367 | 98.7245 | 72.6257 | 386 | 28 | 387 | 5 | 4 | 80.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l150_m2_e0 | het | 95.9024 | 95.6522 | 96.1538 | 91.6800 | 44 | 2 | 50 | 2 | 1 | 50.0000 | |