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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24801-24850 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m0_e0 | * | 98.5264 | 98.3425 | 98.7109 | 83.7230 | 534 | 9 | 536 | 7 | 3 | 42.8571 | |
| jlack-gatk | INDEL | * | map_l100_m1_e0 | homalt | 98.7765 | 98.6960 | 98.8571 | 82.9030 | 1211 | 16 | 1211 | 14 | 6 | 42.8571 | |
| jlack-gatk | INDEL | * | map_l100_m2_e0 | homalt | 98.7694 | 98.6519 | 98.8871 | 83.9295 | 1244 | 17 | 1244 | 14 | 6 | 42.8571 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5582 | 99.2146 | 99.9041 | 50.2607 | 14654 | 116 | 14581 | 14 | 6 | 42.8571 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m0_e0 | * | 96.9035 | 95.2118 | 98.6564 | 78.2917 | 517 | 26 | 514 | 7 | 3 | 42.8571 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m0_e0 | * | 98.6208 | 97.4926 | 99.7755 | 64.1831 | 12442 | 320 | 12442 | 28 | 12 | 42.8571 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e1 | homalt | 99.0968 | 99.0956 | 99.0979 | 85.1341 | 767 | 7 | 769 | 7 | 3 | 42.8571 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7219 | 98.3777 | 99.0685 | 77.8155 | 1516 | 25 | 1489 | 14 | 6 | 42.8571 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7764 | 99.6650 | 99.8881 | 47.1210 | 6247 | 21 | 6247 | 7 | 3 | 42.8571 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2612 | 99.0548 | 99.4685 | 84.3994 | 2620 | 25 | 2620 | 14 | 6 | 42.8571 | |
| jpowers-varprowl | INDEL | I1_5 | map_l250_m2_e0 | het | 89.3939 | 89.3939 | 89.3939 | 97.2454 | 59 | 7 | 59 | 7 | 3 | 42.8571 | |
| jpowers-varprowl | INDEL | I1_5 | map_l250_m2_e1 | het | 89.3939 | 89.3939 | 89.3939 | 97.3419 | 59 | 7 | 59 | 7 | 3 | 42.8571 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.1323 | 91.9608 | 98.5304 | 80.4728 | 1407 | 123 | 1408 | 21 | 9 | 42.8571 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.1323 | 91.9608 | 98.5304 | 80.4728 | 1407 | 123 | 1408 | 21 | 9 | 42.8571 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.9880 | 99.0063 | 98.9698 | 87.7821 | 2690 | 27 | 2690 | 28 | 12 | 42.8571 | |
| jli-custom | SNP | * | map_l250_m2_e1 | het | 97.7120 | 96.5426 | 98.9101 | 87.1957 | 5082 | 182 | 5082 | 56 | 24 | 42.8571 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | * | het | 97.5719 | 96.3280 | 98.8483 | 63.0112 | 3043 | 116 | 3004 | 35 | 15 | 42.8571 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.3908 | 98.3908 | 98.3908 | 69.9793 | 428 | 7 | 428 | 7 | 3 | 42.8571 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9648 | 89.8058 | 96.3542 | 88.3918 | 185 | 21 | 185 | 7 | 3 | 42.8571 | |
| ndellapenna-hhga | SNP | tv | map_l100_m1_e0 | * | 99.2885 | 98.8123 | 99.7692 | 62.3765 | 24210 | 291 | 24210 | 56 | 24 | 42.8571 | |
| ndellapenna-hhga | SNP | tv | map_l250_m0_e0 | het | 96.6071 | 94.5804 | 98.7226 | 91.3140 | 541 | 31 | 541 | 7 | 3 | 42.8571 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_siren | * | 84.5587 | 83.9161 | 85.2113 | 88.7658 | 120 | 23 | 121 | 21 | 9 | 42.8571 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 73.2143 | 71.9298 | 74.5455 | 99.3650 | 41 | 16 | 41 | 14 | 6 | 42.8571 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 77.5000 | 73.8095 | 81.5789 | 99.3308 | 31 | 11 | 31 | 7 | 3 | 42.8571 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.4254 | 93.6982 | 95.1641 | 69.9844 | 565 | 38 | 551 | 28 | 12 | 42.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e0 | het | 98.8614 | 98.0285 | 99.7086 | 70.3185 | 28740 | 578 | 28740 | 84 | 36 | 42.8571 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5689 | 99.4260 | 99.7122 | 48.3103 | 2425 | 14 | 2425 | 7 | 3 | 42.8571 | |
| ndellapenna-hhga | SNP | ti | map_l250_m1_e0 | het | 97.6313 | 95.8221 | 99.5101 | 88.0937 | 2844 | 124 | 2844 | 14 | 6 | 42.8571 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e0 | het | 97.7952 | 96.0971 | 99.5543 | 88.3585 | 3127 | 127 | 3127 | 14 | 6 | 42.8571 | |
| raldana-dualsentieon | INDEL | I1_5 | segdup | * | 99.1492 | 98.9613 | 99.3377 | 93.8436 | 1048 | 11 | 1050 | 7 | 3 | 42.8571 | |
| raldana-dualsentieon | INDEL | * | map_l125_m1_e0 | homalt | 98.6977 | 98.3607 | 99.0371 | 84.0640 | 720 | 12 | 720 | 7 | 3 | 42.8571 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l100_m2_e0 | * | 83.8323 | 77.7778 | 90.9091 | 89.6644 | 70 | 20 | 70 | 7 | 3 | 42.8571 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 84.4444 | 78.3505 | 91.5663 | 89.1503 | 76 | 21 | 76 | 7 | 3 | 42.8571 | |
| rpoplin-dv42 | INDEL | D1_5 | map_siren | * | 99.0944 | 99.1782 | 99.0107 | 80.6593 | 3500 | 29 | 3503 | 35 | 15 | 42.8571 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.0855 | 98.2042 | 97.9671 | 47.8546 | 3992 | 73 | 4048 | 84 | 36 | 42.8571 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.3958 | 98.0100 | 98.7847 | 72.5975 | 591 | 12 | 569 | 7 | 3 | 42.8571 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.2022 | 98.8423 | 99.5649 | 69.6516 | 4781 | 56 | 4805 | 21 | 9 | 42.8571 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | homalt | 96.2599 | 93.3170 | 99.3945 | 84.7554 | 1145 | 82 | 1149 | 7 | 3 | 42.8571 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5348 | 97.9369 | 99.1400 | 71.5584 | 807 | 17 | 807 | 7 | 3 | 42.8571 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 79.3685 | 71.2644 | 89.5522 | 70.7424 | 62 | 25 | 60 | 7 | 3 | 42.8571 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e0 | homalt | 99.1696 | 99.4449 | 98.8959 | 84.6359 | 1254 | 7 | 1254 | 14 | 6 | 42.8571 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e1 | homalt | 99.1826 | 99.4536 | 98.9130 | 84.6885 | 1274 | 7 | 1274 | 14 | 6 | 42.8571 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6218 | 100.0000 | 99.2465 | 77.6468 | 922 | 0 | 922 | 7 | 3 | 42.8571 | |
| gduggal-bwavard | INDEL | C6_15 | HG002compoundhet | het | 0.0000 | 0.0000 | 26.8657 | 91.2189 | 0 | 0 | 18 | 49 | 21 | 42.8571 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m2_e0 | * | 55.4705 | 58.8889 | 52.4272 | 93.3117 | 53 | 37 | 54 | 49 | 21 | 42.8571 | |
| gduggal-bwavard | INDEL | I6_15 | map_l150_m0_e0 | * | 50.0000 | 62.5000 | 41.6667 | 94.5701 | 5 | 3 | 5 | 7 | 3 | 42.8571 | |
| gduggal-bwavard | INDEL | I6_15 | map_l150_m0_e0 | het | 53.3333 | 100.0000 | 36.3636 | 94.5545 | 4 | 0 | 4 | 7 | 3 | 42.8571 | |
| eyeh-varpipe | SNP | tv | map_l150_m1_e0 | homalt | 99.7710 | 99.7212 | 99.8208 | 74.4574 | 3935 | 11 | 3900 | 7 | 3 | 42.8571 | |
| eyeh-varpipe | SNP | tv | map_l150_m2_e0 | homalt | 99.7787 | 99.7306 | 99.8269 | 76.3785 | 4072 | 11 | 4037 | 7 | 3 | 42.8571 | |
| eyeh-varpipe | SNP | tv | map_l150_m2_e1 | homalt | 99.7814 | 99.7339 | 99.8289 | 76.4129 | 4123 | 11 | 4083 | 7 | 3 | 42.8571 | |