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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75651-75700 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0878 | 99.0624 | 99.1133 | 72.7315 | 30851 | 292 | 30851 | 276 | 26 | 9.4203 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0878 | 99.0624 | 99.1133 | 72.7315 | 30851 | 292 | 30851 | 276 | 26 | 9.4203 | |
| ckim-dragen | SNP | ti | map_siren | het | 98.6081 | 99.5319 | 97.7013 | 60.9808 | 62090 | 292 | 62097 | 1461 | 137 | 9.3771 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | het | 94.3634 | 98.1060 | 90.8959 | 79.1108 | 15125 | 292 | 15076 | 1510 | 87 | 5.7616 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 36.8670 | 24.7423 | 72.2944 | 43.7956 | 96 | 292 | 334 | 128 | 127 | 99.2188 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.2391 | 67.4470 | 96.0280 | 47.6132 | 605 | 292 | 411 | 17 | 16 | 94.1176 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6729 | 97.4150 | 99.9636 | 52.1934 | 11004 | 292 | 10992 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 69.8222 | 55.2833 | 94.7368 | 83.6277 | 361 | 292 | 360 | 20 | 16 | 80.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m1_e0 | * | 82.4097 | 78.1927 | 87.1074 | 91.8447 | 1047 | 292 | 1054 | 156 | 8 | 5.1282 | |
| gduggal-snapfb | INDEL | D6_15 | HG002complexvar | homalt | 79.2659 | 75.0214 | 84.0196 | 53.7834 | 877 | 292 | 857 | 163 | 160 | 98.1595 | |
| raldana-dualsentieon | INDEL | D6_15 | * | het | 97.8785 | 97.4810 | 98.2792 | 59.3884 | 11300 | 292 | 11251 | 197 | 187 | 94.9239 | |
| egarrison-hhga | SNP | * | map_l150_m1_e0 | het | 99.0911 | 98.4883 | 99.7013 | 74.4872 | 19024 | 292 | 19024 | 57 | 22 | 38.5965 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7823 | 92.5681 | 95.0288 | 54.7425 | 3637 | 292 | 3632 | 190 | 179 | 94.2105 | |
| ckim-vqsr | SNP | * | segdup | homalt | 98.5850 | 97.2820 | 99.9235 | 88.7282 | 10451 | 292 | 10451 | 8 | 8 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | HG002complexvar | het | 76.6298 | 73.5321 | 80.0000 | 57.0120 | 814 | 293 | 488 | 122 | 28 | 22.9508 | |
| gduggal-bwafb | INDEL | I1_5 | HG002complexvar | homalt | 98.3809 | 97.8212 | 98.9471 | 49.0711 | 13155 | 293 | 13156 | 140 | 134 | 95.7143 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.4626 | 97.0981 | 99.8660 | 55.9944 | 9804 | 293 | 9692 | 13 | 8 | 61.5385 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002complexvar | hetalt | 21.9016 | 12.5373 | 86.5385 | 70.1149 | 42 | 293 | 45 | 7 | 7 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.3228 | 88.0846 | 94.8081 | 46.5735 | 2166 | 293 | 7140 | 391 | 343 | 87.7238 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.9845 | 94.5971 | 99.4954 | 76.1070 | 5130 | 293 | 5127 | 26 | 10 | 38.4615 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.9845 | 94.5971 | 99.4954 | 76.1070 | 5130 | 293 | 5127 | 26 | 10 | 38.4615 | |
| jli-custom | SNP | * | map_l125_m0_e0 | * | 98.9095 | 98.4885 | 99.3340 | 69.7637 | 19092 | 293 | 19092 | 128 | 48 | 37.5000 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e0 | het | 98.7101 | 97.7253 | 99.7148 | 75.0553 | 12588 | 293 | 12588 | 36 | 17 | 47.2222 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 63.1468 | 57.9627 | 69.3493 | 39.7938 | 404 | 293 | 405 | 179 | 173 | 96.6480 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 56.2079 | 45.3358 | 73.9394 | 68.5115 | 243 | 293 | 244 | 86 | 85 | 98.8372 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 88.2477 | 83.3900 | 93.7063 | 86.7826 | 1471 | 293 | 1474 | 99 | 13 | 13.1313 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4245 | 98.9414 | 99.9124 | 64.7733 | 27385 | 293 | 27376 | 24 | 14 | 58.3333 | |
| asubramanian-gatk | INDEL | I6_15 | * | het | 98.1049 | 97.0796 | 99.1521 | 59.9730 | 9740 | 293 | 9706 | 83 | 53 | 63.8554 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.1933 | 87.6162 | 99.5285 | 30.2073 | 2073 | 293 | 2111 | 10 | 10 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0321 | 95.0607 | 99.0869 | 48.8550 | 5639 | 293 | 5643 | 52 | 49 | 94.2308 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 21.0208 | 18.3844 | 24.5399 | 66.7686 | 66 | 293 | 80 | 246 | 190 | 77.2358 | |
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | homalt | 98.2646 | 96.7599 | 99.8168 | 61.4274 | 8750 | 293 | 8718 | 16 | 10 | 62.5000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0538 | 98.3322 | 99.7862 | 63.3791 | 17275 | 293 | 17266 | 37 | 4 | 10.8108 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 60.2265 | 64.3636 | 56.5891 | 50.4418 | 531 | 294 | 730 | 560 | 480 | 85.7143 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 60.2265 | 64.3636 | 56.5891 | 50.4418 | 531 | 294 | 730 | 560 | 480 | 85.7143 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.4365 | 95.0488 | 99.9472 | 61.8862 | 5644 | 294 | 5679 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | * | het | 70.8402 | 90.6933 | 58.1179 | 67.6572 | 2865 | 294 | 2878 | 2074 | 2042 | 98.4571 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.6722 | 83.5938 | 92.1690 | 57.0360 | 1498 | 294 | 1483 | 126 | 81 | 64.2857 | |
| egarrison-hhga | SNP | ti | HG002complexvar | homalt | 99.8937 | 99.8480 | 99.9395 | 18.4037 | 193169 | 294 | 193188 | 117 | 94 | 80.3419 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8586 | 98.2884 | 99.4354 | 55.5329 | 16883 | 294 | 16730 | 95 | 59 | 62.1053 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.5688 | 48.5114 | 96.5157 | 77.0400 | 277 | 294 | 277 | 10 | 5 | 50.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | * | homalt | 86.5142 | 81.1659 | 92.6170 | 34.4514 | 1267 | 294 | 1267 | 101 | 100 | 99.0099 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 68.9517 | 64.3204 | 74.3017 | 60.0892 | 530 | 294 | 532 | 184 | 182 | 98.9130 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e1 | het | 98.7157 | 97.7411 | 99.7100 | 75.1509 | 12721 | 294 | 12721 | 37 | 17 | 45.9459 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 16.5989 | 10.9091 | 34.6939 | 47.3118 | 36 | 294 | 34 | 64 | 12 | 18.7500 | |
| gduggal-snapvard | INDEL | D1_5 | HG002compoundhet | het | 70.6222 | 82.9664 | 61.4755 | 58.2800 | 1432 | 294 | 12099 | 7582 | 5798 | 76.4706 | |
| cchapple-custom | SNP | ti | map_l100_m0_e0 | homalt | 98.0662 | 96.2182 | 99.9866 | 56.4787 | 7480 | 294 | 7479 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 6.9620 | 0.0000 | 0.0000 | 22 | 294 | 0 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 53.9291 | 37.2340 | 97.7654 | 86.7506 | 175 | 295 | 175 | 4 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 87.4518 | 77.8195 | 99.8053 | 29.5610 | 1035 | 295 | 1025 | 2 | 2 | 100.0000 | |