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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37251-37300 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 80.0000 | 100.0000 | 66.6667 | 99.0909 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 80.0000 | 100.0000 | 66.6667 | 98.2249 | 2 | 0 | 2 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 80.0000 | 100.0000 | 66.6667 | 99.0712 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 80.0000 | 100.0000 | 66.6667 | 98.2143 | 2 | 0 | 2 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l125_m2_e0 | homalt | 80.0000 | 100.0000 | 66.6667 | 96.8085 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l125_m2_e1 | homalt | 80.0000 | 100.0000 | 66.6667 | 96.9231 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l250_m1_e0 | * | 80.0000 | 100.0000 | 66.6667 | 96.9849 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 80.0000 | 100.0000 | 66.6667 | 89.0909 | 4 | 0 | 4 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | map_l150_m0_e0 | het | 80.0000 | 100.0000 | 66.6667 | 97.3913 | 2 | 0 | 2 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 80.0000 | 100.0000 | 66.6667 | 87.5000 | 2 | 0 | 2 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l250_m1_e0 | het | 57.1429 | 50.0000 | 66.6667 | 98.1250 | 2 | 2 | 2 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | homalt | 52.6207 | 43.4581 | 66.6792 | 59.8524 | 1777 | 2312 | 1777 | 888 | 815 | 91.7793 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.8290 | 73.2103 | 66.7462 | 59.7115 | 992 | 363 | 839 | 418 | 413 | 98.8038 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 75.6874 | 87.3937 | 66.7467 | 68.5588 | 12021 | 1734 | 12511 | 6233 | 2150 | 34.4938 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 75.6874 | 87.3937 | 66.7467 | 68.5588 | 12021 | 1734 | 12511 | 6233 | 2150 | 34.4938 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 72.4560 | 79.2319 | 66.7478 | 27.2137 | 557 | 146 | 823 | 410 | 336 | 81.9512 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 65.2231 | 63.7325 | 66.7851 | 42.6875 | 23321 | 13271 | 40773 | 20278 | 18291 | 90.2012 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.4884 | 95.1433 | 66.7958 | 80.7253 | 1195 | 61 | 1207 | 600 | 372 | 62.0000 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | het | 75.3571 | 86.4106 | 66.8109 | 87.0439 | 6861 | 1079 | 6796 | 3376 | 934 | 27.6659 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | homalt | 80.0000 | 99.6564 | 66.8203 | 87.9210 | 290 | 1 | 290 | 144 | 143 | 99.3056 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 76.2728 | 88.8112 | 66.8367 | 94.9485 | 127 | 16 | 131 | 65 | 9 | 13.8462 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 77.9560 | 93.5065 | 66.8403 | 62.4021 | 360 | 25 | 385 | 191 | 169 | 88.4817 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e0 | * | 59.1149 | 52.9755 | 66.8639 | 88.9180 | 454 | 403 | 452 | 224 | 193 | 86.1607 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 33.4992 | 22.3466 | 66.8742 | 80.9806 | 539 | 1873 | 537 | 266 | 233 | 87.5940 | |
| mlin-fermikit | SNP | tv | map_l100_m0_e0 | homalt | 61.5471 | 56.9943 | 66.8904 | 49.7701 | 2192 | 1654 | 2192 | 1085 | 1011 | 93.1797 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 42.0587 | 30.6709 | 66.8966 | 62.3377 | 96 | 217 | 97 | 48 | 42 | 87.5000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 77.4574 | 91.9436 | 66.9147 | 52.7787 | 3458 | 303 | 6476 | 3202 | 3147 | 98.2823 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 77.4574 | 91.9436 | 66.9147 | 52.7787 | 3458 | 303 | 6476 | 3202 | 3147 | 98.2823 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.5457 | 53.6378 | 66.9161 | 58.0784 | 2020 | 1746 | 2146 | 1061 | 754 | 71.0650 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.5457 | 53.6378 | 66.9161 | 58.0784 | 2020 | 1746 | 2146 | 1061 | 754 | 71.0650 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 64.6167 | 62.4637 | 66.9234 | 55.7051 | 1506 | 905 | 1564 | 773 | 382 | 49.4179 | |
| anovak-vg | SNP | tv | map_l125_m2_e0 | het | 77.3239 | 91.5342 | 66.9329 | 78.0559 | 9558 | 884 | 9554 | 4720 | 1043 | 22.0975 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 75.9768 | 87.8450 | 66.9339 | 67.8314 | 1496 | 207 | 1670 | 825 | 122 | 14.7879 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | homalt | 74.3512 | 83.5821 | 66.9565 | 84.9279 | 56 | 11 | 77 | 38 | 35 | 92.1053 | |
| ciseli-custom | SNP | tv | map_l250_m0_e0 | het | 59.1512 | 52.9720 | 66.9623 | 96.1499 | 303 | 269 | 302 | 149 | 7 | 4.6980 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.4859 | 43.1507 | 66.9753 | 66.7692 | 378 | 498 | 434 | 214 | 200 | 93.4579 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 63.3637 | 60.1216 | 66.9753 | 55.5677 | 18883 | 12525 | 19891 | 9808 | 7269 | 74.1130 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 63.3637 | 60.1216 | 66.9753 | 55.5677 | 18883 | 12525 | 19891 | 9808 | 7269 | 74.1130 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 70.9699 | 75.4662 | 66.9793 | 63.9738 | 4411 | 1434 | 4785 | 2359 | 1346 | 57.0581 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 70.9699 | 75.4662 | 66.9793 | 63.9738 | 4411 | 1434 | 4785 | 2359 | 1346 | 57.0581 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.1047 | 96.5517 | 66.9981 | 74.4486 | 3136 | 112 | 3167 | 1560 | 81 | 5.1923 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0662 | 93.4911 | 67.0103 | 81.9367 | 158 | 11 | 65 | 32 | 32 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.2396 | 76.0246 | 67.0213 | 78.1818 | 371 | 117 | 378 | 186 | 179 | 96.2366 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 61.3118 | 56.4815 | 67.0455 | 85.0085 | 61 | 47 | 59 | 29 | 28 | 96.5517 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 78.6395 | 95.0820 | 67.0455 | 69.1769 | 116 | 6 | 118 | 58 | 55 | 94.8276 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 76.5568 | 89.1892 | 67.0588 | 70.9331 | 396 | 48 | 399 | 196 | 192 | 97.9592 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 65.5538 | 64.1026 | 67.0722 | 60.4154 | 475 | 266 | 882 | 433 | 97 | 22.4018 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.8551 | 92.7602 | 67.0769 | 92.6287 | 205 | 16 | 218 | 107 | 21 | 19.6262 | |
| anovak-vg | SNP | tv | map_l125_m2_e1 | het | 77.4408 | 91.5759 | 67.0858 | 78.0971 | 9664 | 889 | 9657 | 4738 | 1048 | 22.1190 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m2_e1 | * | 58.3125 | 51.5464 | 67.1233 | 96.0879 | 50 | 47 | 49 | 24 | 21 | 87.5000 | |