PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23701-23750 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.3427 | 99.6234 | 99.0637 | 82.1345 | 529 | 2 | 529 | 5 | 4 | 80.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.3536 | 99.6296 | 99.0792 | 82.1733 | 538 | 2 | 538 | 5 | 4 | 80.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_siren | homalt | 99.5051 | 99.4224 | 99.5878 | 78.4891 | 1205 | 7 | 1208 | 5 | 4 | 80.0000 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | het | 99.1867 | 98.5563 | 99.8253 | 59.8421 | 2321 | 34 | 2285 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_siren | homalt | 97.2678 | 98.8889 | 95.6989 | 85.7143 | 89 | 1 | 89 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9505 | 98.4748 | 99.4309 | 69.9164 | 2970 | 46 | 2970 | 17 | 4 | 23.5294 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7211 | 99.6873 | 99.7550 | 36.7324 | 7332 | 23 | 7328 | 18 | 4 | 22.2222 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2650 | 98.9969 | 99.5345 | 87.4939 | 1283 | 13 | 1283 | 6 | 4 | 66.6667 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1765 | 99.0599 | 99.2933 | 88.5872 | 843 | 8 | 843 | 6 | 4 | 66.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 80.8699 | 68.4318 | 98.8338 | 25.2723 | 336 | 155 | 339 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.4054 | 95.8637 | 98.9975 | 72.4828 | 394 | 17 | 395 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7146 | 97.7227 | 99.7268 | 32.9363 | 1459 | 34 | 1460 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0366 | 99.6124 | 98.4674 | 83.9975 | 257 | 1 | 257 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m1_e0 | het | 98.4276 | 98.2630 | 98.5927 | 82.4444 | 1188 | 21 | 1191 | 17 | 4 | 23.5294 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e0 | het | 98.4460 | 98.2484 | 98.6443 | 83.0632 | 1234 | 22 | 1237 | 17 | 4 | 23.5294 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e1 | het | 98.4607 | 98.2650 | 98.6572 | 83.2006 | 1246 | 22 | 1249 | 17 | 4 | 23.5294 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m0_e0 | * | 97.8830 | 97.7823 | 97.9839 | 88.0998 | 485 | 11 | 486 | 10 | 4 | 40.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m1_e0 | homalt | 98.9107 | 99.5614 | 98.2684 | 87.7971 | 227 | 1 | 227 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.9733 | 99.5868 | 98.3673 | 88.4051 | 241 | 1 | 241 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1506 | 93.3555 | 99.1182 | 52.8678 | 562 | 40 | 562 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1559 | 98.4882 | 99.8328 | 57.1769 | 3583 | 55 | 3583 | 6 | 4 | 66.6667 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8636 | 98.0031 | 99.7394 | 39.6351 | 1914 | 39 | 1914 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.1178 | 74.4266 | 99.3958 | 24.0826 | 649 | 223 | 658 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 85.7909 | 77.6699 | 95.8084 | 83.6435 | 160 | 46 | 160 | 7 | 4 | 57.1429 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 91.0987 | 84.2196 | 99.2016 | 58.5608 | 491 | 92 | 497 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 75.6757 | 64.3678 | 91.8033 | 82.6705 | 56 | 31 | 56 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.5858 | 77.4194 | 98.2143 | 59.5668 | 216 | 63 | 220 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 89.1786 | 80.8250 | 99.4580 | 43.1871 | 725 | 172 | 734 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5467 | 100.0000 | 99.0975 | 80.6361 | 549 | 0 | 549 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m1_e0 | het | 98.3792 | 97.5547 | 99.2177 | 83.0610 | 758 | 19 | 761 | 6 | 4 | 66.6667 | |
| rpoplin-dv42 | INDEL | I1_5 | segdup | homalt | 99.1543 | 99.1543 | 99.1543 | 92.6746 | 469 | 4 | 469 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002complexvar | hetalt | 95.0851 | 90.9240 | 99.6454 | 54.5161 | 1112 | 111 | 1124 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.3921 | 86.0531 | 99.7392 | 40.4272 | 1524 | 247 | 1530 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | SNP | * | HG002complexvar | hetalt | 99.1974 | 99.6774 | 98.7220 | 36.2525 | 309 | 1 | 309 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7936 | 99.6701 | 99.9173 | 72.0908 | 16919 | 56 | 16921 | 14 | 4 | 28.5714 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7936 | 99.6701 | 99.9173 | 72.0908 | 16919 | 56 | 16921 | 14 | 4 | 28.5714 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.1404 | 95.8042 | 96.4789 | 92.5654 | 137 | 6 | 137 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | homalt | 97.8208 | 96.3434 | 99.3443 | 91.6882 | 606 | 23 | 606 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | HG002complexvar | hetalt | 99.1974 | 99.6774 | 98.7220 | 36.2525 | 309 | 1 | 309 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l125_m1_e0 | het | 98.7746 | 98.9539 | 98.5959 | 72.5206 | 28095 | 297 | 28089 | 400 | 4 | 1.0000 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e0 | het | 98.7929 | 98.9733 | 98.6131 | 73.9991 | 29017 | 301 | 29011 | 408 | 4 | 0.9804 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e1 | het | 98.7960 | 98.9845 | 98.6083 | 74.0672 | 29339 | 301 | 29333 | 414 | 4 | 0.9662 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e0 | het | 98.5424 | 98.7434 | 98.3423 | 77.9851 | 19880 | 253 | 19874 | 335 | 4 | 1.1940 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e1 | het | 98.5420 | 98.7576 | 98.3273 | 78.0672 | 20110 | 253 | 20104 | 342 | 4 | 1.1696 | |
| raldana-dualsentieon | SNP | ti | HG002compoundhet | het | 96.7997 | 93.8769 | 99.9104 | 38.0325 | 8923 | 582 | 8924 | 8 | 4 | 50.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0352 | 98.3306 | 99.7499 | 54.7881 | 17553 | 298 | 17552 | 44 | 4 | 9.0909 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.8925 | 88.9660 | 99.3966 | 87.1383 | 1153 | 143 | 1153 | 7 | 4 | 57.1429 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.9322 | 89.0399 | 99.3933 | 86.4223 | 983 | 121 | 983 | 6 | 4 | 66.6667 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3801 | 97.1609 | 99.6303 | 75.8203 | 6468 | 189 | 6468 | 24 | 4 | 16.6667 | |
| raldana-dualsentieon | SNP | ti | map_l150_m0_e0 | homalt | 99.4913 | 99.1670 | 99.8177 | 71.1111 | 2738 | 23 | 2738 | 5 | 4 | 80.0000 | |