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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80301-80350 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | * | map_l250_m0_e0 | het | 61.5036 | 45.0863 | 96.7236 | 98.5089 | 679 | 827 | 679 | 23 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | * | 67.7061 | 62.3406 | 74.0821 | 90.8144 | 1369 | 827 | 1372 | 480 | 310 | 64.5833 | |
| jpowers-varprowl | INDEL | I1_5 | HG002complexvar | het | 94.3417 | 95.4478 | 93.2609 | 57.7585 | 17361 | 828 | 17340 | 1253 | 1221 | 97.4461 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e0 | * | 76.5529 | 62.2951 | 99.2743 | 94.4882 | 1368 | 828 | 1368 | 10 | 2 | 20.0000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 81.5850 | 69.5556 | 98.6454 | 38.9545 | 1894 | 829 | 2039 | 28 | 23 | 82.1429 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | het | 98.7623 | 98.2061 | 99.3248 | 58.2604 | 45383 | 829 | 45014 | 306 | 59 | 19.2810 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.7665 | 97.0048 | 92.6291 | 69.2144 | 26849 | 829 | 26579 | 2115 | 167 | 7.8960 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 74.4014 | 87.0872 | 64.9416 | 71.9724 | 5591 | 829 | 6613 | 3570 | 542 | 15.1821 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 74.4014 | 87.0872 | 64.9416 | 71.9724 | 5591 | 829 | 6613 | 3570 | 542 | 15.1821 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 84.1772 | 73.3974 | 98.6684 | 34.6801 | 2290 | 830 | 2297 | 31 | 21 | 67.7419 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.6182 | 51.4052 | 98.7700 | 39.3736 | 878 | 830 | 803 | 10 | 9 | 90.0000 | |
| ndellapenna-hhga | SNP | * | map_l100_m1_e0 | * | 99.3352 | 98.8536 | 99.8215 | 61.7229 | 71573 | 830 | 71575 | 128 | 61 | 47.6562 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 82.8907 | 73.1218 | 95.6723 | 82.2308 | 2258 | 830 | 2277 | 103 | 19 | 18.4466 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002compoundhet | * | 77.8953 | 64.5023 | 98.3073 | 45.7436 | 1510 | 831 | 1510 | 26 | 25 | 96.1538 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | homalt | 95.2868 | 91.0664 | 99.9174 | 66.1273 | 8471 | 831 | 8471 | 7 | 2 | 28.5714 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e1 | het | 96.2073 | 95.9191 | 96.4972 | 82.5948 | 19532 | 831 | 19532 | 709 | 207 | 29.1961 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.0451 | 54.2606 | 94.9038 | 89.2027 | 987 | 832 | 987 | 53 | 38 | 71.6981 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.0451 | 54.2606 | 94.9038 | 89.2027 | 987 | 832 | 987 | 53 | 38 | 71.6981 | |
| eyeh-varpipe | INDEL | D16_PLUS | * | homalt | 49.8532 | 50.8274 | 48.9155 | 43.2091 | 860 | 832 | 857 | 895 | 865 | 96.6480 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 84.5812 | 78.6612 | 91.4649 | 48.1133 | 3067 | 832 | 10502 | 980 | 908 | 92.6531 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 4.5872 | 0.0000 | 0.0000 | 40 | 832 | 0 | 0 | 0 | ||
| ciseli-custom | SNP | tv | map_l250_m1_e0 | het | 59.5668 | 53.4415 | 67.2779 | 93.2143 | 955 | 832 | 954 | 464 | 21 | 4.5259 | |
| ciseli-custom | INDEL | * | map_l125_m2_e1 | * | 67.9362 | 62.5618 | 74.3207 | 90.8519 | 1392 | 833 | 1395 | 482 | 312 | 64.7303 | |
| egarrison-hhga | INDEL | * | HG002complexvar | hetalt | 86.1120 | 77.4804 | 96.9079 | 71.2204 | 2866 | 833 | 2852 | 91 | 84 | 92.3077 | |
| gduggal-snapfb | INDEL | I1_5 | HG002complexvar | het | 93.2070 | 95.4203 | 91.0940 | 55.8992 | 17356 | 833 | 18135 | 1773 | 467 | 26.3395 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.5972 | 91.9862 | 58.6068 | 39.8738 | 9573 | 834 | 9608 | 6786 | 6745 | 99.3958 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e1 | * | 76.7237 | 62.5169 | 99.2862 | 94.5201 | 1391 | 834 | 1391 | 10 | 2 | 20.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4185 | 97.0953 | 97.7438 | 76.1583 | 27878 | 834 | 27900 | 644 | 34 | 5.2795 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4185 | 97.0953 | 97.7438 | 76.1583 | 27878 | 834 | 27900 | 644 | 34 | 5.2795 | |
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4140 | 91.7105 | 97.2817 | 66.6928 | 9238 | 835 | 9090 | 254 | 209 | 82.2835 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 63.6599 | 61.2245 | 66.2970 | 66.6238 | 1320 | 836 | 1375 | 699 | 438 | 62.6609 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e0 | * | 99.3385 | 98.8697 | 99.8117 | 63.7221 | 73128 | 836 | 73130 | 138 | 63 | 45.6522 | |
| ltrigg-rtg2 | SNP | ti | map_siren | * | 99.4787 | 99.1669 | 99.7924 | 46.9044 | 99518 | 836 | 99513 | 207 | 30 | 14.4928 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.2691 | 51.0539 | 98.5788 | 38.7173 | 872 | 836 | 763 | 11 | 9 | 81.8182 | |
| gduggal-bwavard | SNP | ti | map_l100_m2_e0 | het | 95.6400 | 97.2699 | 94.0639 | 78.7568 | 29786 | 836 | 29537 | 1864 | 142 | 7.6180 | |
| gduggal-bwavard | SNP | * | map_l100_m0_e0 | * | 94.9074 | 97.4514 | 92.4929 | 77.7735 | 32004 | 837 | 31615 | 2566 | 141 | 5.4949 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.1594 | 97.2539 | 97.0650 | 73.4982 | 29643 | 837 | 30823 | 932 | 445 | 47.7468 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1594 | 97.2539 | 97.0650 | 73.4982 | 29643 | 837 | 30823 | 932 | 445 | 47.7468 | |
| anovak-vg | SNP | tv | map_l100_m0_e0 | homalt | 87.5215 | 78.2371 | 99.3060 | 64.7976 | 3009 | 837 | 3005 | 21 | 17 | 80.9524 | |
| ciseli-custom | INDEL | * | map_siren | homalt | 73.0250 | 68.4746 | 78.2234 | 81.7056 | 1818 | 837 | 1814 | 505 | 387 | 76.6337 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5436 | 96.2382 | 98.8849 | 41.9802 | 21413 | 837 | 22170 | 250 | 228 | 91.2000 | |
| gduggal-bwavard | SNP | ti | map_l100_m2_e1 | het | 95.6635 | 97.2933 | 94.0874 | 78.7700 | 30122 | 838 | 29869 | 1877 | 144 | 7.6718 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 38.4337 | 40.5674 | 36.5133 | 81.1880 | 572 | 838 | 865 | 1504 | 300 | 19.9468 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 76.0030 | 61.7352 | 98.8481 | 36.6332 | 1352 | 838 | 1373 | 16 | 16 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 18.1575 | 16.2675 | 20.5446 | 86.8404 | 163 | 839 | 166 | 642 | 34 | 5.2960 | |
| gduggal-snapfb | SNP | * | map_l100_m1_e0 | het | 97.2532 | 98.1503 | 96.3723 | 66.8525 | 44520 | 839 | 44524 | 1676 | 659 | 39.3198 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 59.1118 | 53.1250 | 66.6194 | 50.7504 | 952 | 840 | 940 | 471 | 467 | 99.1507 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.6075 | 95.2464 | 98.0080 | 54.6884 | 16831 | 840 | 16827 | 342 | 333 | 97.3684 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.6075 | 95.2464 | 98.0080 | 54.6884 | 16831 | 840 | 16827 | 342 | 333 | 97.3684 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | * | 99.3413 | 98.8761 | 99.8109 | 63.7314 | 73897 | 840 | 73899 | 140 | 63 | 45.0000 | |