PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2401-2450 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | tv | map_l125_m2_e1 | * | 95.0540 | 97.9288 | 92.3431 | 80.3827 | 16312 | 345 | 16257 | 1348 | 74 | 5.4896 | |
| gduggal-bwavard | SNP | tv | HG002complexvar | het | 98.2582 | 97.4538 | 99.0760 | 23.1907 | 146896 | 3838 | 144431 | 1347 | 888 | 65.9243 | |
| gduggal-snapvard | INDEL | * | map_siren | het | 85.6604 | 93.9663 | 78.7036 | 86.4515 | 4236 | 272 | 4978 | 1347 | 630 | 46.7706 | |
| gduggal-snapplat | SNP | * | map_l150_m1_e0 | het | 92.4706 | 91.9807 | 92.9658 | 86.7974 | 17767 | 1549 | 17789 | 1346 | 738 | 54.8291 | |
| ciseli-custom | SNP | * | map_l250_m2_e1 | het | 62.8544 | 57.5608 | 69.2202 | 93.5567 | 3030 | 2234 | 3027 | 1346 | 41 | 3.0461 | |
| gduggal-snapplat | SNP | * | map_l100_m0_e0 | * | 93.1162 | 90.6854 | 95.6808 | 80.1096 | 29782 | 3059 | 29795 | 1345 | 754 | 56.0595 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e0 | * | 58.1126 | 43.6427 | 86.9367 | 65.5641 | 8952 | 11560 | 8951 | 1345 | 1186 | 88.1784 | |
| 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 | |
| ghariani-varprowl | SNP | * | map_l125_m2_e0 | * | 97.9545 | 98.7522 | 97.1696 | 76.9826 | 46140 | 583 | 46140 | 1344 | 275 | 20.4613 | |
| ghariani-varprowl | SNP | ti | map_siren | * | 99.0024 | 99.3374 | 98.6698 | 59.6146 | 99690 | 665 | 99693 | 1344 | 247 | 18.3780 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.4596 | 98.1094 | 87.4251 | 55.1844 | 9341 | 180 | 9337 | 1343 | 1337 | 99.5532 | |
| gduggal-bwavard | SNP | tv | HG002compoundhet | * | 81.1305 | 78.3481 | 84.1178 | 52.1015 | 6991 | 1932 | 7113 | 1343 | 1177 | 87.6396 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e0 | * | 95.0420 | 97.9501 | 92.3015 | 80.3208 | 16151 | 338 | 16102 | 1343 | 73 | 5.4356 | |
| jlack-gatk | SNP | ti | map_l150_m2_e1 | * | 96.1985 | 98.6826 | 93.8363 | 83.3002 | 20450 | 273 | 20446 | 1343 | 127 | 9.4564 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.6219 | 95.5496 | 95.6944 | 76.1461 | 29757 | 1386 | 29827 | 1342 | 182 | 13.5618 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.6219 | 95.5496 | 95.6944 | 76.1461 | 29757 | 1386 | 29827 | 1342 | 182 | 13.5618 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 44.3448 | 92.6829 | 29.1447 | 34.4863 | 456 | 36 | 552 | 1342 | 1201 | 89.4933 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.2874 | 71.9726 | 85.8170 | 51.6431 | 7976 | 3106 | 8120 | 1342 | 1151 | 85.7675 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 54.7528 | 73.3333 | 43.6844 | 58.3973 | 1034 | 376 | 1041 | 1342 | 1318 | 98.2116 | |
| gduggal-bwavard | INDEL | I16_PLUS | HG002compoundhet | het | 5.1421 | 59.5745 | 2.6870 | 48.2525 | 28 | 19 | 37 | 1340 | 1253 | 93.5075 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.5844 | 94.0959 | 49.1648 | 73.3293 | 1275 | 80 | 1295 | 1339 | 1224 | 91.4115 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.4678 | 77.0663 | 91.0292 | 80.6522 | 13539 | 4029 | 13577 | 1338 | 103 | 7.6981 | |
| gduggal-bwafb | SNP | * | map_siren | * | 99.2387 | 99.3893 | 99.0885 | 58.6242 | 145335 | 893 | 145339 | 1337 | 225 | 16.8287 | |
| gduggal-bwavard | SNP | tv | map_l125_m1_e0 | * | 94.9586 | 97.9708 | 92.1260 | 78.9367 | 15691 | 325 | 15643 | 1337 | 72 | 5.3852 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e1 | het | 93.2098 | 98.3701 | 88.5639 | 83.4663 | 10381 | 172 | 10354 | 1337 | 65 | 4.8616 | |
| ciseli-custom | SNP | * | map_l250_m2_e0 | het | 62.7486 | 57.4894 | 69.0669 | 93.5182 | 2986 | 2208 | 2983 | 1336 | 41 | 3.0689 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.6540 | 89.8499 | 87.4895 | 45.7726 | 8498 | 960 | 9343 | 1336 | 702 | 52.5449 | |
| gduggal-bwavard | SNP | * | map_l250_m1_e0 | het | 86.5001 | 97.8128 | 77.5328 | 92.6635 | 4651 | 104 | 4607 | 1335 | 32 | 2.3970 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 47.6114 | 41.5540 | 55.7361 | 61.7356 | 1690 | 2377 | 1681 | 1335 | 1256 | 94.0824 | |
| hfeng-pmm2 | INDEL | * | * | * | 99.3119 | 99.0152 | 99.6103 | 57.8578 | 341149 | 3393 | 341015 | 1334 | 1012 | 75.8621 | |
| jlack-gatk | INDEL | I1_5 | * | * | 99.0273 | 98.9407 | 99.1140 | 59.6345 | 149068 | 1596 | 149119 | 1333 | 677 | 50.7877 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6793 | 98.2539 | 97.1113 | 81.2381 | 44904 | 798 | 44812 | 1333 | 148 | 11.1028 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6793 | 98.2539 | 97.1113 | 81.2381 | 44904 | 798 | 44812 | 1333 | 148 | 11.1028 | |
| jlack-gatk | SNP | ti | map_l150_m2_e1 | het | 94.5873 | 98.9166 | 90.6210 | 86.3363 | 12874 | 141 | 12870 | 1332 | 118 | 8.8589 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 44.8723 | 35.0206 | 62.4365 | 72.5902 | 2214 | 4108 | 2214 | 1332 | 1288 | 96.6967 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 44.8723 | 35.0206 | 62.4365 | 72.5902 | 2214 | 4108 | 2214 | 1332 | 1288 | 96.6967 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 61.9377 | 88.6347 | 47.6003 | 71.2150 | 1201 | 154 | 1210 | 1332 | 1313 | 98.5736 | |
| gduggal-bwavard | SNP | tv | HG002compoundhet | het | 81.7704 | 86.9463 | 77.1761 | 55.8414 | 4063 | 610 | 4504 | 1332 | 1169 | 87.7628 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e0 | het | 93.1678 | 98.3624 | 88.4944 | 83.4152 | 10271 | 171 | 10245 | 1332 | 64 | 4.8048 | |
| gduggal-snapplat | SNP | ti | map_l100_m2_e1 | * | 95.8022 | 94.4145 | 97.2313 | 76.1409 | 46721 | 2764 | 46742 | 1331 | 691 | 51.9159 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | * | 96.1925 | 98.6739 | 93.8329 | 83.2384 | 20240 | 272 | 20236 | 1330 | 126 | 9.4737 | |
| gduggal-snapplat | SNP | * | map_l100_m0_e0 | het | 93.0063 | 92.3697 | 93.6518 | 83.5542 | 19587 | 1618 | 19606 | 1329 | 738 | 55.5305 | |
| qzeng-custom | INDEL | I1_5 | * | het | 98.4046 | 98.3920 | 98.4173 | 59.0408 | 77770 | 1271 | 82639 | 1329 | 852 | 64.1084 | |
| ciseli-custom | INDEL | D6_15 | HG002complexvar | homalt | 60.1083 | 92.0445 | 44.6250 | 54.8278 | 1076 | 93 | 1071 | 1329 | 1061 | 79.8345 | |
| 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 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 52.1197 | 61.4379 | 45.2558 | 24.9536 | 94 | 59 | 1097 | 1327 | 1322 | 99.6232 | |
| gduggal-bwavard | SNP | tv | map_l125_m1_e0 | het | 93.0274 | 98.3804 | 88.2269 | 82.2633 | 9962 | 164 | 9937 | 1326 | 63 | 4.7511 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 53.2962 | 53.7725 | 52.8282 | 94.9386 | 1461 | 1256 | 1485 | 1326 | 114 | 8.5973 | |
| gduggal-snapplat | SNP | ti | map_l100_m2_e0 | * | 95.7724 | 94.3751 | 97.2116 | 76.1299 | 46207 | 2754 | 46228 | 1326 | 687 | 51.8100 | |