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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41601-41650 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | map_l100_m2_e1 | het | 87.0268 | 77.1576 | 99.7911 | 74.6941 | 23888 | 7072 | 23881 | 50 | 23 | 46.0000 | |
| mlin-fermikit | INDEL | * | HG002complexvar | hetalt | 86.4462 | 77.1560 | 98.2798 | 67.7484 | 2854 | 845 | 3028 | 53 | 52 | 98.1132 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 82.6699 | 77.1496 | 89.0409 | 77.8450 | 16895 | 5004 | 19914 | 2451 | 1673 | 68.2579 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 83.4511 | 77.1464 | 90.8779 | 45.5977 | 1860 | 551 | 1853 | 186 | 163 | 87.6344 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 66.4593 | 77.1439 | 58.3743 | 42.1879 | 6477 | 1919 | 9372 | 6683 | 5135 | 76.8367 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 85.7143 | 77.1429 | 96.4286 | 65.8537 | 27 | 8 | 27 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 84.3750 | 77.1429 | 93.1034 | 76.8000 | 27 | 8 | 27 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 87.0968 | 77.1429 | 100.0000 | 90.2174 | 27 | 8 | 27 | 0 | 0 | ||
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e1 | het | 86.3591 | 77.1293 | 98.0981 | 85.0382 | 978 | 290 | 980 | 19 | 7 | 36.8421 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 86.1055 | 77.1255 | 97.4522 | 79.8031 | 7475 | 2217 | 7497 | 196 | 77 | 39.2857 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 87.0813 | 77.1186 | 100.0000 | 34.4884 | 728 | 216 | 794 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 86.9339 | 77.1098 | 99.6266 | 47.5519 | 1334 | 396 | 1334 | 5 | 2 | 40.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 86.5441 | 77.1084 | 98.6111 | 27.2727 | 64 | 19 | 71 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | map_l100_m2_e0 | het | 75.7043 | 77.0992 | 74.3590 | 85.9586 | 101 | 30 | 116 | 40 | 23 | 57.5000 | |
| astatham-gatk | SNP | ti | map_l100_m2_e0 | het | 86.9897 | 77.0982 | 99.7928 | 74.7072 | 23609 | 7013 | 23602 | 49 | 23 | 46.9388 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 86.5570 | 77.0950 | 98.6667 | 27.5362 | 138 | 41 | 148 | 2 | 1 | 50.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.2768 | 77.0823 | 97.9619 | 72.5253 | 1490 | 443 | 1490 | 31 | 29 | 93.5484 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.9444 | 77.0743 | 97.1216 | 57.5074 | 14073 | 4186 | 14070 | 417 | 292 | 70.0240 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 69.4565 | 77.0732 | 63.2099 | 78.1317 | 158 | 47 | 256 | 149 | 117 | 78.5235 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 69.4565 | 77.0732 | 63.2099 | 78.1317 | 158 | 47 | 256 | 149 | 117 | 78.5235 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 41.4578 | 77.0718 | 28.3552 | 59.9110 | 279 | 83 | 281 | 710 | 706 | 99.4366 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 84.6348 | 77.0701 | 93.8462 | 62.2093 | 121 | 36 | 122 | 8 | 7 | 87.5000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.8319 | 77.0675 | 87.2242 | 66.9862 | 1519 | 452 | 1502 | 220 | 128 | 58.1818 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.8319 | 77.0675 | 87.2242 | 66.9862 | 1519 | 452 | 1502 | 220 | 128 | 58.1818 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.4678 | 77.0663 | 91.0292 | 80.6522 | 13539 | 4029 | 13577 | 1338 | 103 | 7.6981 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 82.9391 | 77.0624 | 89.7862 | 73.3037 | 383 | 114 | 378 | 43 | 27 | 62.7907 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.3708 | 77.0533 | 93.2238 | 41.8507 | 910 | 271 | 908 | 66 | 66 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.0370 | 77.0492 | 100.0000 | 51.0417 | 47 | 14 | 47 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.0370 | 77.0492 | 100.0000 | 56.0748 | 47 | 14 | 47 | 0 | 0 | ||
| qzeng-custom | INDEL | I6_15 | map_l100_m2_e0 | het | 52.8122 | 77.0492 | 40.1747 | 78.2319 | 47 | 14 | 92 | 137 | 4 | 2.9197 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m2_e1 | het | 52.5108 | 77.0492 | 39.8268 | 78.2486 | 47 | 14 | 92 | 139 | 4 | 2.8777 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.0370 | 77.0492 | 100.0000 | 53.9216 | 47 | 14 | 47 | 0 | 0 | ||
| mlin-fermikit | INDEL | I6_15 | map_l100_m2_e0 | het | 82.5467 | 77.0492 | 88.8889 | 82.1192 | 47 | 14 | 48 | 6 | 5 | 83.3333 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m2_e1 | het | 82.5467 | 77.0492 | 88.8889 | 82.5243 | 47 | 14 | 48 | 6 | 5 | 83.3333 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.0370 | 77.0492 | 100.0000 | 56.0748 | 47 | 14 | 47 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 81.6311 | 77.0492 | 86.7925 | 78.4553 | 47 | 14 | 46 | 7 | 7 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.5440 | 77.0445 | 88.8889 | 53.2920 | 537 | 160 | 536 | 67 | 66 | 98.5075 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e1 | het | 76.0958 | 77.0370 | 75.1773 | 80.9202 | 104 | 31 | 106 | 35 | 25 | 71.4286 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 83.8715 | 77.0358 | 92.0384 | 65.7901 | 1419 | 423 | 1341 | 116 | 85 | 73.2759 | |
| mlin-fermikit | INDEL | * | map_siren | * | 83.8340 | 77.0310 | 91.9549 | 78.2144 | 5708 | 1702 | 5715 | 500 | 406 | 81.2000 | |
| jpowers-varprowl | INDEL | I16_PLUS | HG002complexvar | homalt | 82.6907 | 77.0227 | 89.2593 | 61.6477 | 238 | 71 | 241 | 29 | 29 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e1 | homalt | 85.6502 | 77.0161 | 96.4646 | 89.3777 | 191 | 57 | 191 | 7 | 6 | 85.7143 | |
| astatham-gatk | SNP | * | map_l100_m2_e1 | het | 86.9224 | 77.0139 | 99.7569 | 75.4083 | 36118 | 10780 | 36107 | 88 | 33 | 37.5000 | |
| mlin-fermikit | INDEL | D6_15 | map_siren | * | 81.1872 | 77.0138 | 85.8388 | 82.0071 | 392 | 117 | 394 | 65 | 53 | 81.5385 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e1 | het | 85.0994 | 77.0115 | 95.0855 | 94.5122 | 402 | 120 | 445 | 23 | 19 | 82.6087 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 81.0136 | 77.0115 | 85.4545 | 99.8819 | 67 | 20 | 94 | 16 | 4 | 25.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 86.4432 | 77.0115 | 98.5075 | 99.9051 | 67 | 20 | 66 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | het | 86.2638 | 76.9904 | 98.0769 | 84.9825 | 967 | 289 | 969 | 19 | 7 | 36.8421 | |
| gduggal-bwavard | INDEL | D6_15 | HG002complexvar | homalt | 86.1695 | 76.9889 | 97.8360 | 44.7799 | 900 | 269 | 859 | 19 | 14 | 73.6842 | |
| gduggal-snapvard | INDEL | I6_15 | HG002complexvar | het | 67.8635 | 76.9851 | 60.6744 | 48.9450 | 1813 | 542 | 2393 | 1551 | 1213 | 78.2076 | |