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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
48001-48050 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 54.2142 | 52.8090 | 55.6962 | 76.4881 | 94 | 84 | 88 | 70 | 43 | 61.4286 | |
| ckim-isaac | INDEL | * | map_l150_m2_e0 | homalt | 68.8347 | 52.8067 | 98.8327 | 85.5211 | 254 | 227 | 254 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | * | 68.9590 | 52.8054 | 99.3512 | 89.9469 | 10409 | 9303 | 10413 | 68 | 24 | 35.2941 | |
| ciseli-custom | INDEL | D16_PLUS | * | * | 59.6718 | 52.7860 | 68.6237 | 57.6195 | 3581 | 3203 | 3565 | 1630 | 1503 | 92.2086 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e0 | homalt | 69.0979 | 52.7859 | 100.0000 | 91.8846 | 180 | 161 | 180 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 69.0909 | 52.7778 | 100.0000 | 96.2891 | 19 | 17 | 19 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 36.1905 | 52.7778 | 27.5362 | 94.7767 | 19 | 17 | 19 | 50 | 3 | 6.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | hetalt | 68.4843 | 52.7778 | 97.5000 | 75.4601 | 38 | 34 | 39 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m1_e0 | * | 58.9106 | 52.7711 | 66.6667 | 88.0351 | 438 | 392 | 436 | 218 | 187 | 85.7798 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e1 | homalt | 69.0840 | 52.7697 | 100.0000 | 91.9982 | 181 | 162 | 181 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 68.7772 | 52.7619 | 98.7522 | 77.3150 | 554 | 496 | 554 | 7 | 2 | 28.5714 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 55.0938 | 52.7363 | 57.6720 | 74.5283 | 106 | 95 | 109 | 80 | 46 | 57.5000 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 52.7839 | 52.6946 | 52.8736 | 74.7093 | 88 | 79 | 46 | 41 | 18 | 43.9024 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 63.4640 | 52.6659 | 79.8319 | 50.6633 | 1857 | 1669 | 475 | 120 | 116 | 96.6667 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 63.4640 | 52.6659 | 79.8319 | 50.6633 | 1857 | 1669 | 475 | 120 | 116 | 96.6667 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 68.7985 | 52.6643 | 99.1844 | 57.0543 | 9567 | 8599 | 9486 | 78 | 41 | 52.5641 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 68.7985 | 52.6643 | 99.1844 | 57.0543 | 9567 | 8599 | 9486 | 78 | 41 | 52.5641 | |
| ckim-vqsr | SNP | ti | map_l250_m1_e0 | het | 68.5076 | 52.6617 | 97.9937 | 97.0232 | 1563 | 1405 | 1563 | 32 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 68.7152 | 52.6555 | 98.8701 | 55.1331 | 347 | 312 | 350 | 4 | 4 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 68.7152 | 52.6555 | 98.8701 | 55.1331 | 347 | 312 | 350 | 4 | 4 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 48.9137 | 52.6535 | 45.6699 | 40.6819 | 506 | 455 | 1176 | 1399 | 1152 | 82.3445 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 63.8520 | 52.6367 | 81.1407 | 57.2311 | 2146 | 1931 | 3201 | 744 | 345 | 46.3710 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 55.4931 | 52.6341 | 58.6805 | 53.0447 | 22809 | 20526 | 37552 | 26442 | 22338 | 84.4792 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 0.0000 | 52.6316 | 0.0000 | 0.0000 | 10 | 9 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 44.2166 | 52.6316 | 38.1215 | 75.7697 | 70 | 63 | 69 | 112 | 110 | 98.2143 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m0_e0 | het | 52.5060 | 52.6316 | 52.3810 | 94.1176 | 10 | 9 | 11 | 10 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 66.6667 | 52.6316 | 90.9091 | 71.7949 | 10 | 9 | 10 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 66.8693 | 52.6316 | 91.6667 | 69.2308 | 10 | 9 | 11 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 63.9582 | 52.6316 | 81.4969 | 78.9220 | 390 | 351 | 392 | 89 | 11 | 12.3596 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 68.9655 | 52.6316 | 100.0000 | 94.0828 | 10 | 9 | 10 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 68.9655 | 52.6316 | 100.0000 | 98.0507 | 10 | 9 | 10 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 68.9655 | 52.6316 | 100.0000 | 98.0843 | 10 | 9 | 10 | 0 | 0 | ||
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 60.5876 | 52.6310 | 71.3784 | 62.8612 | 5011 | 4510 | 6504 | 2608 | 1963 | 75.2684 | |
| ckim-isaac | SNP | ti | map_l250_m1_e0 | het | 68.7954 | 52.6280 | 99.3007 | 91.8721 | 1562 | 1406 | 1562 | 11 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 68.9441 | 52.6066 | 100.0000 | 53.3613 | 111 | 100 | 111 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 67.3062 | 52.6056 | 93.4092 | 74.8938 | 3200 | 2883 | 3203 | 226 | 95 | 42.0354 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 56.1509 | 52.5940 | 60.2239 | 47.9612 | 1105 | 996 | 1614 | 1066 | 694 | 65.1032 | |
| gduggal-bwafb | INDEL | D16_PLUS | map_l100_m2_e1 | * | 66.2338 | 52.5773 | 89.4737 | 85.6784 | 51 | 46 | 51 | 6 | 6 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 68.4973 | 52.5761 | 98.2495 | 47.4411 | 898 | 810 | 898 | 16 | 15 | 93.7500 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 59.0705 | 52.5583 | 67.4247 | 65.2810 | 1397 | 1261 | 3024 | 1461 | 1247 | 85.3525 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.9939 | 52.5579 | 96.2669 | 70.6277 | 2065 | 1864 | 2063 | 80 | 56 | 70.0000 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e1 | het | 67.5834 | 52.5568 | 94.6429 | 82.8559 | 740 | 668 | 742 | 42 | 17 | 40.4762 | |
| ckim-isaac | SNP | tv | map_l100_m1_e0 | homalt | 68.8845 | 52.5489 | 99.9579 | 57.4205 | 4752 | 4291 | 4752 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l150_m2_e1 | * | 68.8039 | 52.5424 | 99.6429 | 96.3688 | 279 | 252 | 279 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.6110 | 52.5360 | 98.8604 | 77.0138 | 694 | 627 | 694 | 8 | 6 | 75.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 68.8645 | 52.5140 | 100.0000 | 28.5714 | 94 | 85 | 115 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 55.2299 | 52.5133 | 58.2428 | 71.2539 | 1870 | 1691 | 1876 | 1345 | 1229 | 91.3755 | |
| mlin-fermikit | INDEL | * | map_l150_m2_e0 | * | 64.8581 | 52.4858 | 84.8624 | 85.1067 | 739 | 669 | 740 | 132 | 104 | 78.7879 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 52.6981 | 52.4613 | 52.9371 | 95.3580 | 746 | 676 | 757 | 673 | 56 | 8.3210 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 57.5634 | 52.4590 | 63.7681 | 43.4426 | 32 | 29 | 44 | 25 | 20 | 80.0000 | |