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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74701-74750 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | ti | map_l100_m2_e1 | het | 99.2699 | 99.4832 | 99.0575 | 69.3770 | 30800 | 160 | 30793 | 293 | 38 | 12.9693 | |
| anovak-vg | INDEL | D1_5 | map_l125_m0_e0 | het | 80.1955 | 85.5072 | 75.5051 | 90.4922 | 295 | 50 | 299 | 97 | 38 | 39.1753 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 45.3035 | 36.1272 | 60.7287 | 71.8358 | 125 | 221 | 150 | 97 | 38 | 39.1753 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 19.5313 | 12.1359 | 50.0000 | 45.6954 | 25 | 181 | 41 | 41 | 38 | 92.6829 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 43.2688 | 35.3933 | 55.6522 | 57.2491 | 63 | 115 | 64 | 51 | 38 | 74.5098 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 64.1521 | 78.2895 | 54.3396 | 87.4882 | 119 | 33 | 144 | 121 | 38 | 31.4050 | |
| anovak-vg | SNP | tv | segdup | homalt | 98.7340 | 98.8882 | 98.5802 | 89.2441 | 3202 | 36 | 3194 | 46 | 38 | 82.6087 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.5419 | 95.5335 | 99.6365 | 30.2678 | 10609 | 496 | 10690 | 39 | 38 | 97.4359 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6076 | 97.1467 | 98.0729 | 73.4952 | 44398 | 1304 | 44428 | 873 | 38 | 4.3528 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6076 | 97.1467 | 98.0729 | 73.4952 | 44398 | 1304 | 44428 | 873 | 38 | 4.3528 | |
| bgallagher-sentieon | INDEL | D1_5 | HG002compoundhet | hetalt | 96.7320 | 94.0192 | 99.6060 | 57.1663 | 9605 | 611 | 9606 | 38 | 38 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2540 | 95.0409 | 99.5726 | 63.0163 | 8835 | 461 | 8854 | 38 | 38 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | * | hetalt | 96.5632 | 93.7974 | 99.4971 | 32.7057 | 7667 | 507 | 7716 | 39 | 38 | 97.4359 | |
| ckim-gatk | SNP | * | HG002compoundhet | * | 99.3973 | 99.0009 | 99.7970 | 41.7198 | 25564 | 258 | 25561 | 52 | 38 | 73.0769 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0661 | 99.2298 | 98.9030 | 75.7127 | 45350 | 352 | 45350 | 503 | 38 | 7.5547 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0661 | 99.2298 | 98.9030 | 75.7127 | 45350 | 352 | 45350 | 503 | 38 | 7.5547 | |
| ciseli-custom | SNP | * | func_cds | homalt | 99.2844 | 99.8567 | 98.7187 | 22.2148 | 6969 | 10 | 6934 | 90 | 38 | 42.2222 | |
| ckim-dragen | INDEL | D16_PLUS | * | het | 97.5880 | 99.0820 | 96.1385 | 80.1270 | 3130 | 29 | 2888 | 116 | 38 | 32.7586 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6869 | 99.5614 | 95.8817 | 72.8731 | 908 | 4 | 908 | 39 | 38 | 97.4359 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.5003 | 98.6256 | 94.4647 | 86.9451 | 1794 | 25 | 1553 | 91 | 38 | 41.7582 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.5003 | 98.6256 | 94.4647 | 86.9451 | 1794 | 25 | 1553 | 91 | 38 | 41.7582 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3289 | 97.6004 | 97.0588 | 69.9817 | 1749 | 43 | 1749 | 53 | 38 | 71.6981 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | het | 59.3607 | 61.3208 | 57.5221 | 94.3500 | 65 | 41 | 65 | 48 | 38 | 79.1667 | |
| ciseli-custom | INDEL | I1_5 | segdup | homalt | 90.4345 | 89.2178 | 91.6849 | 90.5285 | 422 | 51 | 419 | 38 | 38 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | het | 98.0379 | 98.3796 | 97.6985 | 74.2557 | 1700 | 28 | 1698 | 40 | 38 | 95.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.3915 | 97.1904 | 95.6056 | 75.0334 | 934 | 27 | 892 | 41 | 38 | 92.6829 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8891 | 94.9885 | 98.8674 | 52.9255 | 3317 | 175 | 3317 | 38 | 38 | 100.0000 | |
| ckim-dragen | SNP | * | map_siren | homalt | 99.7220 | 99.5214 | 99.9236 | 48.9049 | 54892 | 264 | 54896 | 42 | 38 | 90.4762 | |
| cchapple-custom | SNP | ti | map_l250_m1_e0 | * | 96.3982 | 95.8943 | 96.9074 | 89.5799 | 4391 | 188 | 4387 | 140 | 38 | 27.1429 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 16.6667 | 93.6386 | 0 | 0 | 22 | 110 | 38 | 34.5455 | |
| ckim-dragen | SNP | tv | map_l125_m1_e0 | * | 98.3749 | 99.0322 | 97.7263 | 73.5955 | 15861 | 155 | 15860 | 369 | 38 | 10.2981 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8922 | 94.2909 | 99.6412 | 27.0291 | 10471 | 634 | 10553 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.2606 | 98.3425 | 85.1301 | 84.5313 | 356 | 6 | 229 | 40 | 38 | 95.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.6885 | 100.0000 | 64.8649 | 84.2999 | 169 | 0 | 72 | 39 | 38 | 97.4359 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1124 | 94.7719 | 99.5714 | 64.0050 | 8810 | 486 | 8829 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8615 | 94.3541 | 99.5059 | 29.2939 | 7604 | 455 | 7652 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8615 | 94.3541 | 99.5059 | 29.2939 | 7604 | 455 | 7652 | 38 | 38 | 100.0000 | |
| ckim-dragen | SNP | tv | map_l125_m2_e0 | * | 98.4063 | 99.0539 | 97.7671 | 75.5410 | 16333 | 156 | 16332 | 373 | 39 | 10.4558 | |
| ckim-dragen | SNP | tv | map_l125_m2_e1 | * | 98.4134 | 99.0575 | 97.7776 | 75.6170 | 16500 | 157 | 16499 | 375 | 39 | 10.4000 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.3063 | 96.6102 | 98.0125 | 68.8327 | 2565 | 90 | 2515 | 51 | 39 | 76.4706 | |
| ckim-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 96.5709 | 93.7255 | 99.5943 | 58.2762 | 9575 | 641 | 9575 | 39 | 39 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7759 | 97.0213 | 96.5318 | 75.2636 | 1368 | 42 | 1336 | 48 | 39 | 81.2500 | |
| ckim-gatk | INDEL | D6_15 | * | hetalt | 96.8620 | 94.3602 | 99.5001 | 32.9523 | 7713 | 461 | 7762 | 39 | 39 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.5298 | 97.9511 | 80.7619 | 65.1199 | 4207 | 88 | 4219 | 1005 | 39 | 3.8806 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 94.8802 | 99.4227 | 90.7347 | 62.0390 | 2239 | 13 | 2223 | 227 | 39 | 17.1806 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 84.0742 | 97.1085 | 74.1248 | 53.6075 | 6549 | 195 | 6606 | 2306 | 39 | 1.6912 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9831 | 94.4710 | 99.6324 | 29.8141 | 10491 | 614 | 10571 | 39 | 39 | 100.0000 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | het | 95.1984 | 96.6443 | 93.7950 | 84.7357 | 2160 | 75 | 2343 | 155 | 39 | 25.1613 | |
| ckim-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.3779 | 99.9176 | 96.8850 | 55.5556 | 1213 | 1 | 1213 | 39 | 39 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.5725 | 99.8788 | 95.3704 | 71.6070 | 824 | 1 | 824 | 40 | 39 | 97.5000 | |