PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78301-78350 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D1_5 | HG002compoundhet | hetalt | 91.1048 | 83.6629 | 100.0000 | 61.9355 | 8547 | 1669 | 177 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 76.2491 | 62.1404 | 98.6463 | 36.1300 | 8553 | 5211 | 7870 | 108 | 94 | 87.0370 | |
| ckim-gatk | SNP | tv | map_l125_m2_e1 | het | 87.8849 | 81.0480 | 95.9816 | 88.0637 | 8553 | 2000 | 8551 | 358 | 15 | 4.1899 | |
| gduggal-bwaplat | SNP | ti | HG002compoundhet | het | 83.6361 | 90.0158 | 78.1008 | 46.8217 | 8556 | 949 | 8677 | 2433 | 181 | 7.4394 | |
| ckim-vqsr | INDEL | D6_15 | HG002compoundhet | * | 95.5291 | 94.7736 | 96.2967 | 36.1965 | 8559 | 472 | 8555 | 329 | 326 | 99.0881 | |
| qzeng-custom | SNP | * | map_l125_m0_e0 | het | 78.6100 | 67.5932 | 93.9173 | 91.2651 | 8560 | 4104 | 8492 | 550 | 460 | 83.6364 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.5310 | 94.8178 | 96.2551 | 36.1757 | 8563 | 468 | 8559 | 333 | 330 | 99.0991 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e0 | het | 62.0977 | 45.3857 | 98.2903 | 64.2784 | 8567 | 10309 | 8566 | 149 | 7 | 4.6980 | |
| qzeng-custom | INDEL | D1_5 | * | hetalt | 89.9947 | 83.6798 | 97.3404 | 85.7251 | 8573 | 1672 | 183 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | tv | map_l125_m2_e1 | het | 87.8827 | 81.2376 | 95.7119 | 88.2796 | 8573 | 1980 | 8571 | 384 | 13 | 3.3854 | |
| mlin-fermikit | SNP | * | map_l100_m0_e0 | het | 57.3538 | 40.4669 | 98.4278 | 57.0061 | 8581 | 12624 | 8577 | 137 | 4 | 2.9197 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.3046 | 77.4770 | 97.4025 | 63.5175 | 8586 | 2496 | 8587 | 229 | 186 | 81.2227 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.1524 | 77.3435 | 97.2257 | 44.5184 | 8589 | 2516 | 8586 | 245 | 240 | 97.9592 | |
| gduggal-bwaplat | SNP | * | map_l125_m2_e0 | homalt | 66.1790 | 49.4619 | 99.9651 | 80.4937 | 8594 | 8781 | 8587 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.8359 | 92.4591 | 99.4688 | 63.5748 | 8595 | 701 | 8613 | 46 | 42 | 91.3043 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 61.1186 | 54.5495 | 69.4865 | 69.7213 | 8597 | 7163 | 10095 | 4433 | 1247 | 28.1299 | |
| astatham-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.7191 | 95.2165 | 96.2270 | 36.2319 | 8599 | 432 | 8595 | 337 | 334 | 99.1098 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 92.7405 | 88.7846 | 97.0653 | 58.2458 | 8605 | 1087 | 8798 | 266 | 144 | 54.1353 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.8086 | 95.3161 | 96.3062 | 36.3267 | 8608 | 423 | 8604 | 330 | 327 | 99.0909 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | * | 98.0032 | 96.5370 | 99.5145 | 49.4980 | 8614 | 309 | 8609 | 42 | 11 | 26.1905 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| ckim-isaac | INDEL | I6_15 | * | het | 88.7567 | 85.9065 | 91.8024 | 48.2080 | 8619 | 1414 | 8623 | 770 | 554 | 71.9481 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.9007 | 77.8470 | 90.9754 | 41.3740 | 8627 | 2455 | 9355 | 928 | 916 | 98.7069 | |
| jmaeng-gatk | SNP | * | map_l125_m0_e0 | het | 79.8036 | 68.1775 | 96.2100 | 91.1308 | 8634 | 4030 | 8631 | 340 | 27 | 7.9412 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | het | 79.9330 | 68.2249 | 96.4920 | 90.8886 | 8640 | 4024 | 8637 | 314 | 30 | 9.5541 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.0027 | 83.0403 | 70.0649 | 36.4124 | 8642 | 1765 | 11127 | 4754 | 3440 | 72.3601 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.3883 | 91.3830 | 95.4836 | 39.3587 | 8643 | 815 | 9408 | 445 | 428 | 96.1798 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.2090 | 80.0667 | 78.3696 | 91.0972 | 8648 | 2153 | 8681 | 2396 | 141 | 5.8848 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.8395 | 42.0033 | 50.4468 | 47.0151 | 8651 | 11945 | 8637 | 8484 | 8329 | 98.1730 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | het | 70.4610 | 54.8457 | 98.5073 | 60.6122 | 8653 | 7124 | 8645 | 131 | 2 | 1.5267 | |
| jli-custom | INDEL | D6_15 | HG002compoundhet | * | 96.8618 | 95.8809 | 97.8630 | 33.8766 | 8659 | 372 | 8655 | 189 | 186 | 98.4127 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 75.9388 | 61.7232 | 98.6618 | 39.1505 | 8661 | 5371 | 8184 | 111 | 101 | 90.9910 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | * | 97.5434 | 95.9362 | 99.2054 | 30.5780 | 8664 | 367 | 8615 | 69 | 63 | 91.3043 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 66.2291 | 94.8867 | 50.8665 | 79.7967 | 8666 | 467 | 8806 | 8506 | 164 | 1.9281 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 66.2291 | 94.8867 | 50.8665 | 79.7967 | 8666 | 467 | 8806 | 8506 | 164 | 1.9281 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 65.9654 | 55.6526 | 80.9698 | 74.3202 | 8669 | 6908 | 8633 | 2029 | 1680 | 82.7994 | |
| gduggal-snapfb | INDEL | I1_5 | HG002compoundhet | hetalt | 85.0180 | 77.5969 | 94.0087 | 72.7861 | 8673 | 2504 | 4111 | 262 | 204 | 77.8626 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.5598 | 93.3484 | 100.0000 | 31.4834 | 8673 | 618 | 8716 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.5598 | 93.3484 | 100.0000 | 31.4834 | 8673 | 618 | 8716 | 0 | 0 | ||
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 77.1546 | 63.0485 | 99.3919 | 33.0569 | 8678 | 5086 | 8826 | 54 | 53 | 98.1481 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | * | 98.0516 | 97.2879 | 98.8274 | 47.0684 | 8681 | 242 | 8681 | 103 | 93 | 90.2913 | |
| gduggal-snapfb | INDEL | I1_5 | * | hetalt | 80.2098 | 77.5793 | 83.0249 | 77.6167 | 8685 | 2510 | 4128 | 844 | 445 | 52.7251 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.1607 | 93.4776 | 99.0024 | 33.2299 | 8685 | 606 | 8733 | 88 | 82 | 93.1818 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.1607 | 93.4776 | 99.0024 | 33.2299 | 8685 | 606 | 8733 | 88 | 82 | 93.1818 | |
| anovak-vg | SNP | * | HG002compoundhet | homalt | 80.7165 | 80.5695 | 80.8640 | 38.2684 | 8687 | 2095 | 7974 | 1887 | 1143 | 60.5723 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 85.2919 | 75.6705 | 97.7165 | 64.9393 | 8690 | 2794 | 8687 | 203 | 174 | 85.7143 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4715 | 93.5529 | 99.5781 | 31.7934 | 8692 | 599 | 8733 | 37 | 36 | 97.2973 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4715 | 93.5529 | 99.5781 | 31.7934 | 8692 | 599 | 8733 | 37 | 36 | 97.2973 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4888 | 93.5852 | 99.5783 | 30.8129 | 8695 | 596 | 8738 | 37 | 37 | 100.0000 | |