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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40651-40700 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.6041 | 74.3750 | 85.6240 | 66.7717 | 119 | 41 | 542 | 91 | 45 | 49.4505 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 79.6040 | 75.0000 | 84.8101 | 64.2534 | 69 | 23 | 67 | 12 | 12 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.5976 | 80.1449 | 79.0576 | 60.6684 | 8073 | 2000 | 10755 | 2849 | 1405 | 49.3155 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 79.5918 | 66.1017 | 100.0000 | 69.0476 | 39 | 20 | 39 | 0 | 0 | ||
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 79.5911 | 66.1007 | 100.0000 | 40.0484 | 1090 | 559 | 1238 | 0 | 0 | ||
| ckim-isaac | INDEL | D1_5 | map_l150_m2_e1 | het | 79.5911 | 66.8582 | 98.3146 | 91.5439 | 349 | 173 | 350 | 6 | 2 | 33.3333 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002compoundhet | het | 79.5908 | 79.8077 | 79.3750 | 86.5997 | 166 | 42 | 127 | 33 | 33 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e0 | homalt | 79.5902 | 79.5417 | 79.6388 | 77.9587 | 486 | 125 | 485 | 124 | 118 | 95.1613 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 79.5890 | 75.9398 | 83.6066 | 81.9793 | 202 | 64 | 204 | 40 | 39 | 97.5000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 79.5886 | 67.1053 | 97.7778 | 44.5067 | 255 | 125 | 484 | 11 | 8 | 72.7273 | |
| ciseli-custom | INDEL | D16_PLUS | segdup | het | 79.5789 | 72.9730 | 87.5000 | 90.3614 | 27 | 10 | 28 | 4 | 2 | 50.0000 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e0 | het | 79.5780 | 74.5033 | 85.3946 | 95.3000 | 675 | 231 | 725 | 124 | 19 | 15.3226 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.5775 | 77.4363 | 81.8404 | 75.0483 | 49893 | 14538 | 49840 | 11059 | 10522 | 95.1442 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e1 | het | 79.5754 | 66.5483 | 98.9440 | 95.1306 | 937 | 471 | 937 | 10 | 2 | 20.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.5706 | 70.3775 | 91.5264 | 68.8371 | 3300 | 1389 | 3316 | 307 | 18 | 5.8632 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.5694 | 95.6738 | 68.1055 | 61.1370 | 1349 | 61 | 1420 | 665 | 621 | 93.3835 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 79.5691 | 68.1159 | 95.6522 | 67.8322 | 47 | 22 | 44 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | het | 79.5622 | 74.4589 | 85.4167 | 95.3345 | 688 | 236 | 738 | 126 | 19 | 15.0794 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e0 | het | 79.5566 | 73.6888 | 86.4399 | 92.5370 | 1700 | 607 | 1855 | 291 | 32 | 10.9966 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e0 | * | 79.5482 | 67.3279 | 97.1883 | 91.0248 | 577 | 280 | 795 | 23 | 11 | 47.8261 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.5482 | 82.0297 | 77.2125 | 65.3284 | 3314 | 726 | 2914 | 860 | 707 | 82.2093 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.5455 | 83.3333 | 76.0870 | 91.5905 | 35 | 7 | 35 | 11 | 1 | 9.0909 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 79.5455 | 67.3077 | 97.2222 | 68.9655 | 35 | 17 | 35 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.5452 | 72.3383 | 88.3470 | 65.9371 | 2942 | 1125 | 3025 | 399 | 313 | 78.4461 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 79.5382 | 68.9655 | 93.9394 | 75.0943 | 60 | 27 | 62 | 4 | 3 | 75.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | * | hetalt | 79.5358 | 66.1148 | 99.7932 | 43.8033 | 1278 | 655 | 1448 | 3 | 2 | 66.6667 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.5334 | 83.2452 | 76.1384 | 70.7854 | 2047 | 412 | 2090 | 655 | 364 | 55.5725 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e1 | het | 79.5322 | 97.1564 | 67.3203 | 96.9369 | 205 | 6 | 206 | 100 | 13 | 13.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.5312 | 73.0273 | 87.3070 | 53.3227 | 509 | 188 | 509 | 74 | 73 | 98.6486 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 79.5287 | 70.4992 | 91.2109 | 53.4545 | 1864 | 780 | 467 | 45 | 45 | 100.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 79.5193 | 68.6275 | 94.5205 | 91.5704 | 70 | 32 | 69 | 4 | 3 | 75.0000 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | homalt | 79.5181 | 67.3575 | 97.0370 | 94.8157 | 130 | 63 | 131 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 79.5169 | 66.3764 | 99.1444 | 42.1411 | 991 | 502 | 927 | 8 | 5 | 62.5000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 79.5118 | 70.0599 | 91.9118 | 65.9148 | 117 | 50 | 125 | 11 | 10 | 90.9091 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 79.5102 | 66.0798 | 99.7928 | 43.7451 | 1276 | 655 | 1445 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 79.5102 | 66.0798 | 99.7928 | 43.7451 | 1276 | 655 | 1445 | 3 | 2 | 66.6667 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | het | 79.5099 | 74.9211 | 84.6975 | 89.9093 | 950 | 318 | 952 | 172 | 40 | 23.2558 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 79.5092 | 65.9878 | 100.0000 | 28.6008 | 324 | 167 | 347 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | map_l125_m2_e0 | * | 79.5082 | 76.9841 | 82.2034 | 92.3674 | 97 | 29 | 97 | 21 | 19 | 90.4762 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.5056 | 67.4419 | 96.8254 | 74.5968 | 58 | 28 | 61 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 79.5052 | 66.5627 | 98.6958 | 53.7549 | 2347 | 1179 | 2346 | 31 | 28 | 90.3226 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 79.5052 | 66.5627 | 98.6958 | 53.7549 | 2347 | 1179 | 2346 | 31 | 28 | 90.3226 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | hetalt | 79.5048 | 66.7941 | 98.1900 | 36.1641 | 1398 | 695 | 1085 | 20 | 16 | 80.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e0 | het | 79.5047 | 74.8408 | 84.7885 | 89.8548 | 940 | 316 | 942 | 169 | 39 | 23.0769 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 79.4872 | 70.4545 | 91.1765 | 96.6732 | 31 | 13 | 31 | 3 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.4861 | 73.7415 | 86.2013 | 48.1481 | 542 | 193 | 531 | 85 | 81 | 95.2941 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.4845 | 74.4341 | 85.2701 | 46.6287 | 28212 | 9690 | 32580 | 5628 | 3335 | 59.2573 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 79.4844 | 92.6189 | 69.6125 | 45.3619 | 3388 | 270 | 3395 | 1482 | 1473 | 99.3927 | |
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | het | 79.4811 | 73.6018 | 86.3811 | 92.1058 | 1645 | 590 | 1795 | 283 | 31 | 10.9541 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m1_e0 | * | 79.4806 | 67.1084 | 97.4457 | 90.6775 | 557 | 273 | 763 | 20 | 11 | 55.0000 | |