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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28951-29000 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.0280 | 94.8346 | 99.3253 | 40.5686 | 6334 | 345 | 11482 | 78 | 47 | 60.2564 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.2816 | 94.8346 | 99.8583 | 45.6289 | 6334 | 345 | 6341 | 9 | 7 | 77.7778 | |
| gduggal-snapplat | SNP | * | * | hetalt | 96.2665 | 94.8335 | 97.7435 | 52.4025 | 826 | 45 | 823 | 19 | 18 | 94.7368 | |
| gduggal-snapplat | SNP | tv | * | hetalt | 96.2665 | 94.8335 | 97.7435 | 52.4025 | 826 | 45 | 823 | 19 | 18 | 94.7368 | |
| ltrigg-rtg2 | INDEL | * | * | hetalt | 97.1063 | 94.8330 | 99.4912 | 68.4092 | 23933 | 1304 | 24639 | 126 | 124 | 98.4127 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.3380 | 94.8299 | 99.9823 | 61.6765 | 5631 | 307 | 5659 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m2_e0 | het | 96.5990 | 94.8298 | 98.4355 | 90.5728 | 752 | 41 | 755 | 12 | 1 | 8.3333 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.4036 | 94.8289 | 98.0315 | 47.7581 | 1247 | 68 | 1245 | 25 | 21 | 84.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002compoundhet | hetalt | 97.1229 | 94.8287 | 99.5310 | 57.0294 | 10599 | 578 | 10611 | 50 | 44 | 88.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3867 | 94.8287 | 97.9968 | 59.1527 | 3044 | 166 | 3033 | 62 | 60 | 96.7742 | |
| ndellapenna-hhga | INDEL | I1_5 | * | hetalt | 97.0167 | 94.8280 | 99.3087 | 62.5367 | 10616 | 579 | 10630 | 74 | 67 | 90.5405 | |
| raldana-dualsentieon | INDEL | * | map_l250_m2_e1 | homalt | 96.9163 | 94.8276 | 99.0991 | 94.6839 | 110 | 6 | 110 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | segdup | * | 94.0171 | 94.8276 | 93.2203 | 95.0545 | 55 | 3 | 55 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | segdup | * | 94.8276 | 94.8276 | 94.8276 | 93.6819 | 55 | 3 | 55 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | segdup | * | 94.8714 | 94.8276 | 94.9153 | 95.0833 | 55 | 3 | 56 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | segdup | * | 90.1639 | 94.8276 | 85.9375 | 97.1806 | 55 | 3 | 55 | 9 | 3 | 33.3333 | |
| ckim-vqsr | INDEL | I6_15 | map_l100_m2_e0 | * | 96.9163 | 94.8276 | 99.0991 | 90.5932 | 110 | 6 | 110 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | map_l100_m2_e1 | * | 96.9163 | 94.8276 | 99.0991 | 90.8113 | 110 | 6 | 110 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 96.4912 | 94.8276 | 98.2143 | 88.8000 | 110 | 6 | 110 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 96.4912 | 94.8276 | 98.2143 | 89.0838 | 110 | 6 | 110 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.9948 | 94.8276 | 99.2634 | 69.4944 | 440 | 24 | 539 | 4 | 1 | 25.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l100_m2_e0 | * | 96.4912 | 94.8276 | 98.2143 | 88.3817 | 110 | 6 | 110 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l100_m2_e1 | * | 96.4912 | 94.8276 | 98.2143 | 88.6525 | 110 | 6 | 110 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.4006 | 94.8267 | 92.0168 | 79.6069 | 3831 | 209 | 3723 | 323 | 189 | 58.5139 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | * | 95.8880 | 94.8263 | 96.9738 | 65.9095 | 11602 | 633 | 11600 | 362 | 359 | 99.1713 | |
| ciseli-custom | INDEL | D1_5 | * | het | 91.4315 | 94.8260 | 88.2716 | 63.1491 | 83041 | 4531 | 83497 | 11094 | 3726 | 33.5857 | |
| astatham-gatk | INDEL | D6_15 | * | hetalt | 97.1014 | 94.8251 | 99.4898 | 33.5762 | 7751 | 423 | 7800 | 40 | 39 | 97.5000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8086 | 94.8250 | 98.8768 | 51.0057 | 2547 | 139 | 2553 | 29 | 2 | 6.8966 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m2_e0 | het | 97.1444 | 94.8248 | 99.5802 | 74.4091 | 1191 | 65 | 1186 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | het | 96.0823 | 94.8235 | 97.3750 | 74.4000 | 806 | 44 | 779 | 21 | 5 | 23.8095 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.6966 | 94.8227 | 88.7701 | 73.3903 | 1337 | 73 | 1328 | 168 | 145 | 86.3095 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.1769 | 94.8227 | 70.9646 | 59.4330 | 1337 | 73 | 1442 | 590 | 557 | 94.4068 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002complexvar | homalt | 94.6777 | 94.8220 | 94.5338 | 66.1957 | 293 | 16 | 294 | 17 | 10 | 58.8235 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e0 | het | 94.8873 | 94.8220 | 94.9527 | 90.6157 | 293 | 16 | 301 | 16 | 2 | 12.5000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.4649 | 94.8198 | 96.1187 | 82.0271 | 421 | 23 | 421 | 17 | 14 | 82.3529 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | homalt | 97.1242 | 94.8195 | 99.5437 | 79.7473 | 10689 | 584 | 10689 | 49 | 20 | 40.8163 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m1_e0 | * | 90.5689 | 94.8193 | 86.6832 | 88.0250 | 787 | 43 | 1048 | 161 | 65 | 40.3727 | |
| gduggal-snapplat | SNP | ti | HG002compoundhet | hetalt | 97.1675 | 94.8187 | 99.6357 | 22.1277 | 549 | 30 | 547 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | tv | map_l250_m0_e0 | homalt | 96.8254 | 94.8187 | 98.9189 | 93.7500 | 183 | 10 | 183 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.5310 | 94.8178 | 96.2551 | 36.1757 | 8563 | 468 | 8559 | 333 | 330 | 99.0991 | |
| rpoplin-dv42 | INDEL | D16_PLUS | HG002compoundhet | het | 71.2910 | 94.8148 | 57.1195 | 50.0000 | 384 | 21 | 349 | 262 | 262 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m2_e1 | het | 95.8801 | 94.8148 | 96.9697 | 86.5990 | 128 | 7 | 128 | 4 | 1 | 25.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.3167 | 94.8139 | 99.9552 | 24.2743 | 4406 | 241 | 4459 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e0 | homalt | 97.1871 | 94.8136 | 99.6825 | 79.8291 | 7221 | 395 | 7222 | 23 | 14 | 60.8696 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | * | 93.7910 | 94.8133 | 92.7906 | 55.1605 | 5027 | 275 | 5277 | 410 | 156 | 38.0488 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.9405 | 94.8116 | 97.0966 | 77.0267 | 1736 | 95 | 1739 | 52 | 3 | 5.7692 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9984 | 94.8103 | 99.2899 | 54.8611 | 1699 | 93 | 1678 | 12 | 9 | 75.0000 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 78.8703 | 94.8102 | 67.5188 | 69.4075 | 9189 | 503 | 9350 | 4498 | 362 | 8.0480 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | homalt | 96.9795 | 94.8097 | 99.2509 | 62.0739 | 274 | 15 | 265 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | homalt | 89.8612 | 94.8097 | 85.4037 | 66.1053 | 274 | 15 | 275 | 47 | 38 | 80.8511 | |