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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65701-65750 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.5658 | 99.5452 | 99.5863 | 69.3755 | 4815 | 22 | 4815 | 20 | 10 | 50.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6292 | 99.7696 | 99.4893 | 34.4273 | 3897 | 9 | 3896 | 20 | 3 | 15.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1997 | 98.5761 | 97.8261 | 89.4229 | 900 | 13 | 900 | 20 | 13 | 65.0000 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8488 | 99.8809 | 99.8167 | 61.3691 | 10898 | 13 | 10894 | 20 | 5 | 25.0000 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | * | 98.3164 | 98.1315 | 98.5019 | 88.5230 | 1313 | 25 | 1315 | 20 | 7 | 35.0000 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | * | 98.3640 | 98.1534 | 98.5755 | 89.3077 | 1382 | 26 | 1384 | 20 | 7 | 35.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | HG002compoundhet | * | 95.5047 | 92.1828 | 99.0749 | 28.5997 | 2158 | 183 | 2142 | 20 | 20 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9438 | 95.5133 | 98.4177 | 45.4467 | 1256 | 59 | 1244 | 20 | 12 | 60.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 98.5556 | 97.4729 | 99.6627 | 53.9495 | 5747 | 149 | 5909 | 20 | 20 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 98.5556 | 97.4729 | 99.6627 | 53.9495 | 5747 | 149 | 5909 | 20 | 20 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | hetalt | 97.3347 | 95.0298 | 99.7542 | 44.1554 | 8126 | 425 | 8116 | 20 | 19 | 95.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002complexvar | het | 98.2137 | 97.4098 | 99.0310 | 49.5355 | 2294 | 61 | 2044 | 20 | 9 | 45.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.1878 | 96.9931 | 99.4123 | 51.7989 | 3387 | 105 | 3383 | 20 | 14 | 70.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.2000 | 97.2028 | 99.2178 | 83.0336 | 2641 | 76 | 2537 | 20 | 1 | 5.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.2673 | 97.7324 | 98.8081 | 84.5914 | 1724 | 40 | 1658 | 20 | 1 | 5.0000 | |
| ltrigg-rtg2 | SNP | * | map_l125_m0_e0 | het | 97.5444 | 95.3569 | 99.8346 | 54.8630 | 12076 | 588 | 12074 | 20 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | * | map_l150_m0_e0 | * | 97.7647 | 95.7862 | 99.8267 | 65.0696 | 11525 | 507 | 11521 | 20 | 4 | 20.0000 | |
| mlin-fermikit | INDEL | I1_5 | HG002complexvar | hetalt | 88.8775 | 80.8806 | 98.6292 | 68.2274 | 1396 | 330 | 1439 | 20 | 20 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | het | 71.4516 | 57.0142 | 95.6803 | 75.8729 | 443 | 334 | 443 | 20 | 12 | 60.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e0 | het | 71.6654 | 57.2509 | 95.7806 | 78.7349 | 454 | 339 | 454 | 20 | 12 | 60.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 91.2206 | 93.2203 | 89.3048 | 64.9813 | 165 | 12 | 167 | 20 | 20 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 72.5735 | 57.3752 | 98.7253 | 40.9262 | 1517 | 1127 | 1549 | 20 | 20 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0092 | 96.5121 | 99.5535 | 31.2615 | 4455 | 161 | 4459 | 20 | 0 | 0.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 82.9932 | 80.2632 | 85.9155 | 91.4458 | 122 | 30 | 122 | 20 | 5 | 25.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.9376 | 96.2573 | 97.6275 | 55.5145 | 823 | 32 | 823 | 20 | 1 | 5.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 76.3948 | 71.7742 | 81.6514 | 99.9459 | 89 | 35 | 89 | 20 | 12 | 60.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m1_e0 | * | 97.8802 | 97.6103 | 98.1516 | 85.0201 | 1062 | 26 | 1062 | 20 | 8 | 40.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e0 | * | 97.9825 | 97.7253 | 98.2410 | 85.7697 | 1117 | 26 | 1117 | 20 | 8 | 40.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e1 | * | 98.0069 | 97.7528 | 98.2624 | 85.8582 | 1131 | 26 | 1131 | 20 | 8 | 40.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m2_e0 | * | 98.6727 | 97.5517 | 99.8198 | 64.8483 | 11077 | 278 | 11076 | 20 | 2 | 10.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m2_e1 | * | 98.6899 | 97.5830 | 99.8222 | 64.8925 | 11224 | 278 | 11226 | 20 | 2 | 10.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 58.6637 | 41.7103 | 98.8365 | 49.0818 | 1595 | 2229 | 1699 | 20 | 18 | 90.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.8304 | 69.7614 | 98.9490 | 45.2532 | 1871 | 811 | 1883 | 20 | 20 | 100.0000 | |
| mlin-fermikit | INDEL | * | map_l250_m1_e0 | homalt | 59.0164 | 49.5413 | 72.9730 | 91.3043 | 54 | 55 | 54 | 20 | 19 | 95.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m0_e0 | homalt | 33.3333 | 100.0000 | 20.0000 | 92.9178 | 5 | 0 | 5 | 20 | 4 | 20.0000 | |
| mlin-fermikit | INDEL | D1_5 | * | hetalt | 80.4314 | 67.3987 | 99.7126 | 64.5076 | 6905 | 3340 | 6939 | 20 | 20 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.6709 | 97.2719 | 98.0732 | 76.6321 | 1034 | 29 | 1018 | 20 | 19 | 95.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 56.5217 | 100.0000 | 39.3939 | 54.1667 | 13 | 0 | 13 | 20 | 19 | 95.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.7050 | 91.2434 | 96.3031 | 57.7013 | 521 | 50 | 521 | 20 | 16 | 80.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1506 | 94.9540 | 99.4513 | 30.8218 | 3613 | 192 | 3625 | 20 | 19 | 95.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.9476 | 97.8095 | 98.0861 | 56.9959 | 1027 | 23 | 1025 | 20 | 9 | 45.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_siren | * | 98.9476 | 98.5691 | 99.3291 | 79.9192 | 2962 | 43 | 2961 | 20 | 6 | 30.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 90.6589 | 89.8785 | 91.4530 | 77.6930 | 222 | 25 | 214 | 20 | 12 | 60.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 80.3030 | 89.8305 | 72.6027 | 74.2049 | 53 | 6 | 53 | 20 | 19 | 95.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7610 | 99.6391 | 99.8833 | 55.2713 | 17115 | 62 | 17116 | 20 | 15 | 75.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.6376 | 93.6473 | 97.7143 | 85.3434 | 855 | 58 | 855 | 20 | 10 | 50.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 90.2790 | 82.8456 | 99.1780 | 30.0661 | 9200 | 1905 | 2413 | 20 | 17 | 85.0000 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | hetalt | 79.5048 | 66.7941 | 98.1900 | 36.1641 | 1398 | 695 | 1085 | 20 | 16 | 80.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 62.5303 | 57.6923 | 68.2540 | 68.8119 | 15 | 11 | 43 | 20 | 12 | 60.0000 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m0_e0 | het | 77.6186 | 65.9509 | 94.3020 | 93.0987 | 215 | 111 | 331 | 20 | 8 | 40.0000 | |