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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62551-62600 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6831 | 97.5694 | 99.8224 | 66.3479 | 562 | 14 | 562 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1506 | 93.3555 | 99.1182 | 52.8678 | 562 | 40 | 562 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.3739 | 93.3105 | 99.6454 | 63.1854 | 544 | 39 | 562 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2056 | 99.6454 | 98.7698 | 73.1350 | 562 | 2 | 562 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.7268 | 93.0195 | 98.5965 | 56.9811 | 573 | 43 | 562 | 8 | 8 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 90.2206 | 83.1563 | 98.5965 | 64.1509 | 548 | 111 | 562 | 8 | 8 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 90.2206 | 83.1563 | 98.5965 | 64.1509 | 548 | 111 | 562 | 8 | 8 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l125_m0_e0 | het | 96.8885 | 95.4003 | 98.4238 | 87.4146 | 560 | 27 | 562 | 9 | 1 | 11.1111 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e0 | homalt | 92.6163 | 87.3181 | 98.5989 | 84.8461 | 420 | 61 | 563 | 8 | 6 | 75.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 73.3911 | 89.0476 | 62.4169 | 74.6344 | 561 | 69 | 563 | 339 | 45 | 13.2743 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6854 | 97.7431 | 99.6460 | 66.1879 | 563 | 13 | 563 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3822 | 99.8227 | 98.9455 | 72.2032 | 563 | 1 | 563 | 6 | 6 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4700 | 99.8227 | 99.1197 | 72.8749 | 563 | 1 | 563 | 5 | 5 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7719 | 98.5989 | 98.9455 | 64.4153 | 563 | 8 | 563 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5579 | 99.8227 | 99.2945 | 72.0827 | 563 | 1 | 563 | 4 | 4 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.7719 | 97.7431 | 99.8227 | 66.2275 | 563 | 13 | 563 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6460 | 99.8227 | 99.4700 | 72.0632 | 563 | 1 | 563 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5579 | 99.8227 | 99.2945 | 71.7629 | 563 | 1 | 563 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5625 | 99.4792 | 99.6460 | 61.1149 | 573 | 3 | 563 | 2 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 79.1842 | 93.5216 | 68.6585 | 57.6883 | 563 | 39 | 563 | 257 | 251 | 97.6654 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1405 | 97.7087 | 94.6218 | 72.0263 | 597 | 14 | 563 | 32 | 32 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2070 | 100.0000 | 98.4266 | 73.0316 | 564 | 0 | 563 | 9 | 9 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5587 | 100.0000 | 99.1213 | 72.8401 | 564 | 0 | 564 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5587 | 100.0000 | 99.1213 | 72.9177 | 564 | 0 | 564 | 5 | 5 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m1_e0 | homalt | 88.8389 | 81.4189 | 97.7470 | 86.4139 | 482 | 110 | 564 | 13 | 1 | 7.6923 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.5572 | 93.6535 | 99.6466 | 65.5088 | 546 | 37 | 564 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3833 | 100.0000 | 98.7741 | 72.8095 | 564 | 0 | 564 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5587 | 100.0000 | 99.1213 | 72.7881 | 564 | 0 | 564 | 5 | 5 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | segdup | het | 97.0200 | 96.4684 | 97.5779 | 93.5180 | 519 | 19 | 564 | 14 | 8 | 57.1429 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.7633 | 44.9960 | 88.9590 | 75.7274 | 562 | 687 | 564 | 70 | 67 | 95.7143 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.7633 | 44.9960 | 88.9590 | 75.7274 | 562 | 687 | 564 | 70 | 67 | 95.7143 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.2142 | 96.8491 | 97.5820 | 71.1510 | 584 | 19 | 565 | 14 | 5 | 35.7143 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 91.9411 | 87.7264 | 96.5812 | 72.9667 | 436 | 61 | 565 | 20 | 19 | 95.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m1_e0 | het | 83.8279 | 72.7156 | 98.9492 | 92.4321 | 565 | 212 | 565 | 6 | 1 | 16.6667 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7395 | 93.9966 | 99.6473 | 67.3951 | 548 | 35 | 565 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9492 | 98.9492 | 98.9492 | 64.2902 | 565 | 6 | 565 | 6 | 6 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.8349 | 99.1243 | 94.6488 | 66.0998 | 566 | 5 | 566 | 32 | 32 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.1413 | 97.5124 | 98.7784 | 72.7143 | 588 | 15 | 566 | 7 | 4 | 57.1429 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3854 | 100.0000 | 98.7784 | 71.6337 | 564 | 0 | 566 | 7 | 7 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m0_e0 | het | 94.2548 | 95.7699 | 92.7869 | 86.8336 | 566 | 25 | 566 | 44 | 21 | 47.7273 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 59.0682 | 92.1182 | 43.4716 | 69.7982 | 561 | 48 | 566 | 736 | 726 | 98.6413 | |
| ckim-gatk | SNP | ti | HG002compoundhet | hetalt | 98.8646 | 97.7547 | 100.0000 | 22.2527 | 566 | 13 | 566 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5211 | 99.2995 | 97.7547 | 53.9013 | 567 | 4 | 566 | 13 | 13 | 100.0000 | |
| ciseli-custom | SNP | ti | map_l250_m0_e0 | het | 64.5750 | 60.5996 | 69.1087 | 96.2053 | 566 | 368 | 566 | 253 | 6 | 2.3715 | |
| ckim-vqsr | SNP | * | map_l250_m2_e1 | homalt | 34.4702 | 20.8241 | 100.0000 | 96.9977 | 566 | 2152 | 566 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 92.3366 | 91.0042 | 93.7086 | 71.1832 | 435 | 43 | 566 | 38 | 38 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 23.7409 | 20.8999 | 27.4757 | 50.6350 | 576 | 2180 | 566 | 1494 | 1477 | 98.8621 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 96.0913 | 95.6007 | 96.5870 | 86.7899 | 565 | 26 | 566 | 20 | 2 | 10.0000 | |