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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28801-28850 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | I6_15 | func_cds | * | 74.3590 | 67.4419 | 82.8571 | 33.9623 | 29 | 14 | 29 | 6 | 6 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l150_m1_e0 | * | 81.9444 | 80.8219 | 83.0986 | 93.6036 | 59 | 14 | 59 | 12 | 11 | 91.6667 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 79.1991 | 87.0370 | 72.6562 | 76.5138 | 94 | 14 | 93 | 35 | 35 | 100.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.9024 | 39.1304 | 50.0000 | 86.0465 | 9 | 14 | 9 | 9 | 8 | 88.8889 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 72.0930 | 68.8889 | 75.6098 | 76.1628 | 31 | 14 | 31 | 10 | 10 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l100_m2_e1 | het | 94.1953 | 98.2716 | 90.4437 | 90.5024 | 796 | 14 | 795 | 84 | 29 | 34.5238 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 82.0654 | 92.0904 | 74.0088 | 72.2494 | 163 | 14 | 168 | 59 | 57 | 96.6102 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 68.5714 | 60.0000 | 80.0000 | 90.8425 | 21 | 14 | 20 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | SNP | * | func_cds | het | 99.3937 | 99.8746 | 98.9174 | 34.8349 | 11147 | 14 | 11147 | 122 | 2 | 1.6393 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 95.0613 | 99.1139 | 91.3271 | 69.3870 | 1566 | 14 | 1569 | 149 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7332 | 99.6556 | 97.8277 | 50.1744 | 4051 | 14 | 4053 | 90 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | ti | map_l100_m0_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 14 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.6108 | 99.3560 | 92.1377 | 74.6935 | 2160 | 14 | 2168 | 185 | 14 | 7.5676 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7530 | 99.7694 | 99.7366 | 55.3284 | 6058 | 14 | 6058 | 16 | 16 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.4001 | 93.6937 | 97.1698 | 60.5948 | 208 | 14 | 206 | 6 | 4 | 66.6667 | |
| gduggal-snapplat | SNP | tv | func_cds | homalt | 99.5875 | 99.1784 | 100.0000 | 26.2009 | 1690 | 14 | 1690 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 42.8571 | 46.1538 | 40.0000 | 98.9510 | 12 | 14 | 12 | 18 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | map_l150_m2_e0 | * | 28.5714 | 17.6471 | 75.0000 | 95.3488 | 3 | 14 | 3 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6501 | 96.3918 | 98.9418 | 73.2295 | 374 | 14 | 374 | 4 | 3 | 75.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002complexvar | homalt | 99.8477 | 99.8959 | 99.7995 | 52.5914 | 13434 | 14 | 13438 | 27 | 27 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m1_e0 | het | 97.4247 | 97.1193 | 97.7320 | 84.0145 | 472 | 14 | 474 | 11 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m2_e0 | het | 97.4818 | 97.1831 | 97.7823 | 85.5182 | 483 | 14 | 485 | 11 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m2_e1 | het | 97.5364 | 97.2441 | 97.8304 | 85.6618 | 494 | 14 | 496 | 11 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.0370 | 77.0492 | 100.0000 | 53.9216 | 47 | 14 | 47 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.6115 | 90.6040 | 96.8254 | 76.2264 | 135 | 14 | 122 | 4 | 3 | 75.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9455 | 99.9307 | 99.9604 | 55.9950 | 20185 | 14 | 20185 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7826 | 99.6424 | 99.9232 | 75.5082 | 3901 | 14 | 3901 | 3 | 2 | 66.6667 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6302 | 99.4260 | 99.8353 | 48.5599 | 2425 | 14 | 2425 | 4 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4286 | 99.1139 | 99.7452 | 49.4364 | 1566 | 14 | 1566 | 4 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7906 | 99.6556 | 99.9260 | 45.0901 | 4051 | 14 | 4051 | 3 | 1 | 33.3333 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6360 | 99.4350 | 99.8379 | 27.9708 | 2464 | 14 | 2463 | 4 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 96.4815 | 93.9914 | 99.1071 | 75.0834 | 219 | 14 | 222 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.3692 | 98.9653 | 99.7765 | 72.8230 | 1339 | 14 | 1339 | 3 | 1 | 33.3333 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 90.1080 | 83.9080 | 97.2973 | 99.8986 | 73 | 14 | 72 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.5510 | 97.1545 | 97.9508 | 60.7085 | 478 | 14 | 478 | 10 | 7 | 70.0000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m1_e0 | hetalt | 92.8270 | 88.7097 | 97.3451 | 88.4694 | 110 | 14 | 110 | 3 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e0 | hetalt | 92.8870 | 88.8000 | 97.3684 | 89.1841 | 111 | 14 | 111 | 3 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e0 | homalt | 98.9290 | 98.8898 | 98.9683 | 83.3597 | 1247 | 14 | 1247 | 13 | 8 | 61.5385 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e1 | homalt | 98.9071 | 98.9071 | 98.9071 | 83.4560 | 1267 | 14 | 1267 | 14 | 9 | 64.2857 | |
| rpoplin-dv42 | INDEL | * | map_l250_m1_e0 | * | 96.0396 | 95.4098 | 96.6777 | 99.6478 | 291 | 14 | 291 | 10 | 5 | 50.0000 | |
| rpoplin-dv42 | INDEL | * | map_l250_m2_e0 | * | 96.3526 | 95.7704 | 96.9419 | 99.6591 | 317 | 14 | 317 | 10 | 5 | 50.0000 | |
| rpoplin-dv42 | INDEL | * | map_l250_m2_e1 | * | 96.3746 | 95.7958 | 96.9605 | 99.6645 | 319 | 14 | 319 | 10 | 5 | 50.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 87.0552 | 97.3435 | 78.7338 | 77.6244 | 513 | 14 | 485 | 131 | 131 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9221 | 99.8717 | 99.9725 | 60.1200 | 10897 | 14 | 10893 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.5589 | 96.3636 | 92.8205 | 77.9037 | 371 | 14 | 362 | 28 | 18 | 64.2857 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e1 | * | 98.2028 | 98.2005 | 98.2051 | 88.8460 | 764 | 14 | 766 | 14 | 7 | 50.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.8041 | 98.6070 | 99.0020 | 64.5686 | 991 | 14 | 992 | 10 | 9 | 90.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m1_e0 | * | 94.9416 | 94.5736 | 95.3125 | 85.7936 | 244 | 14 | 244 | 12 | 6 | 50.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m2_e0 | * | 95.0570 | 94.6970 | 95.4198 | 86.1887 | 250 | 14 | 250 | 12 | 6 | 50.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6796 | 99.7755 | 99.5839 | 69.4549 | 6222 | 14 | 6222 | 26 | 19 | 73.0769 | |