PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
34551-34600 / 86044 show all | |||||||||||||||
| mlin-fermikit | SNP | * | map_l150_m1_e0 | hetalt | 46.1538 | 30.0000 | 100.0000 | 68.4211 | 6 | 14 | 6 | 0 | 0 | ||
| mlin-fermikit | SNP | * | map_l150_m2_e0 | hetalt | 46.1538 | 30.0000 | 100.0000 | 73.9130 | 6 | 14 | 6 | 0 | 0 | ||
| mlin-fermikit | SNP | * | map_l150_m2_e1 | hetalt | 46.1538 | 30.0000 | 100.0000 | 75.0000 | 6 | 14 | 6 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l125_m1_e0 | hetalt | 46.1538 | 30.0000 | 100.0000 | 68.9655 | 9 | 21 | 9 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l125_m2_e0 | hetalt | 46.1538 | 30.0000 | 100.0000 | 76.3158 | 9 | 21 | 9 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | hetalt | 46.1538 | 30.0000 | 100.0000 | 76.9231 | 9 | 21 | 9 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l150_m1_e0 | hetalt | 46.1538 | 30.0000 | 100.0000 | 68.4211 | 6 | 14 | 6 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l150_m2_e0 | hetalt | 46.1538 | 30.0000 | 100.0000 | 73.9130 | 6 | 14 | 6 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l150_m2_e1 | hetalt | 46.1538 | 30.0000 | 100.0000 | 75.0000 | 6 | 14 | 6 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | C1_5 | * | * | 46.1538 | 30.0000 | 100.0000 | 98.8636 | 3 | 7 | 1 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 39.0307 | 30.0166 | 55.7823 | 32.5275 | 181 | 422 | 1230 | 975 | 826 | 84.7179 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.4760 | 30.0699 | 25.2941 | 98.0122 | 43 | 100 | 43 | 127 | 9 | 7.0866 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.8095 | 30.0844 | 80.5650 | 56.8082 | 713 | 1657 | 713 | 172 | 158 | 91.8605 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.8171 | 30.1266 | 80.3150 | 57.0116 | 714 | 1656 | 714 | 175 | 158 | 90.2857 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 45.8313 | 30.1293 | 95.7115 | 55.2632 | 4147 | 9617 | 5825 | 261 | 249 | 95.4023 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 43.4048 | 30.1435 | 77.5000 | 51.4416 | 252 | 584 | 248 | 72 | 70 | 97.2222 | |
| gduggal-snapvard | INDEL | D6_15 | * | homalt | 45.1606 | 30.1454 | 89.9777 | 38.5773 | 1907 | 4419 | 1616 | 180 | 176 | 97.7778 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.1953 | 30.1465 | 82.7653 | 67.2461 | 1728 | 4004 | 1700 | 354 | 318 | 89.8305 | |
| jpowers-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.3323 | 30.1494 | 83.7121 | 76.2590 | 666 | 1543 | 663 | 129 | 106 | 82.1705 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.2731 | 30.1494 | 83.2915 | 76.5745 | 666 | 1543 | 663 | 133 | 106 | 79.6992 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 30.1700 | 0.0000 | 0.0000 | 1402 | 3245 | 0 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 42.7404 | 30.1771 | 73.2258 | 61.7378 | 1176 | 2721 | 1135 | 415 | 63 | 15.1807 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 35.1776 | 30.1901 | 42.1390 | 49.2400 | 397 | 918 | 394 | 541 | 481 | 88.9094 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 39.0803 | 30.2044 | 55.3435 | 41.1500 | 399 | 922 | 725 | 585 | 494 | 84.4444 | |
| asubramanian-gatk | SNP | * | map_l125_m1_e0 | * | 46.3852 | 30.2138 | 99.8032 | 91.3119 | 13695 | 31632 | 13692 | 27 | 6 | 22.2222 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 33.4346 | 30.2162 | 37.4205 | 71.0821 | 643 | 1485 | 647 | 1082 | 1074 | 99.2606 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e0 | * | 46.3923 | 30.2201 | 99.7997 | 92.3039 | 4983 | 11506 | 4982 | 10 | 2 | 20.0000 | |
| anovak-vg | SNP | * | map_l100_m2_e1 | hetalt | 0.0000 | 30.2326 | 0.0000 | 0.0000 | 13 | 30 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l100_m2_e1 | hetalt | 0.0000 | 30.2326 | 0.0000 | 0.0000 | 13 | 30 | 0 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | map_siren | * | 44.1848 | 30.2326 | 82.0513 | 68.0328 | 26 | 60 | 32 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | het | 44.4856 | 30.2381 | 84.1220 | 66.7223 | 5500 | 12689 | 6204 | 1171 | 683 | 58.3262 | |
| gduggal-snapplat | INDEL | I6_15 | segdup | * | 42.6472 | 30.2857 | 72.0588 | 94.2761 | 53 | 122 | 49 | 19 | 2 | 10.5263 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 42.5532 | 30.3030 | 71.4286 | 87.1560 | 10 | 23 | 10 | 4 | 1 | 25.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 46.3415 | 30.3191 | 98.2759 | 68.9840 | 57 | 131 | 57 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 40.0753 | 30.3227 | 59.0755 | 67.9189 | 1917 | 4405 | 1917 | 1328 | 1307 | 98.4187 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 40.0753 | 30.3227 | 59.0755 | 67.9189 | 1917 | 4405 | 1917 | 1328 | 1307 | 98.4187 | |
| mlin-fermikit | SNP | tv | map_l250_m1_e0 | * | 43.4641 | 30.3362 | 76.6221 | 76.8295 | 803 | 1844 | 803 | 245 | 216 | 88.1633 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.9171 | 30.3578 | 33.6453 | 67.1740 | 806 | 1849 | 791 | 1560 | 1458 | 93.4615 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 42.6673 | 30.3609 | 71.7500 | 71.1191 | 286 | 656 | 287 | 113 | 96 | 84.9558 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 30.3646 | 0.0000 | 0.0000 | 1449 | 3323 | 0 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 46.0787 | 30.3663 | 95.4861 | 59.9469 | 4261 | 9771 | 6050 | 286 | 274 | 95.8042 | |
| gduggal-snapplat | INDEL | D6_15 | map_l100_m2_e1 | het | 43.1266 | 30.3704 | 74.3590 | 93.8967 | 41 | 94 | 29 | 10 | 1 | 10.0000 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 30.4251 | 0.0000 | 0.0000 | 816 | 1866 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | map_l125_m2_e1 | * | 46.6345 | 30.4256 | 99.8030 | 92.2720 | 5068 | 11589 | 5067 | 10 | 2 | 20.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.8169 | 30.4348 | 43.5115 | 29.1892 | 49 | 112 | 57 | 74 | 60 | 81.0811 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.0186 | 30.4348 | 41.2281 | 58.5455 | 49 | 112 | 47 | 67 | 58 | 86.5672 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 30.4348 | 0.0000 | 0.0000 | 7 | 16 | 0 | 0 | 0 | ||
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 45.1613 | 30.4348 | 87.5000 | 27.2727 | 7 | 16 | 7 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 35.0447 | 30.4403 | 41.2903 | 53.1797 | 1196 | 2733 | 1216 | 1729 | 1499 | 86.6975 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 30.4432 | 0.0000 | 0.0000 | 2830 | 6466 | 0 | 0 | 0 | ||