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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80551-80600 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | tv | map_l250_m2_e0 | het | 60.1108 | 53.7113 | 68.2415 | 93.5631 | 1042 | 898 | 1040 | 484 | 21 | 4.3388 | |
| anovak-vg | SNP | ti | map_l250_m2_e1 | * | 75.8245 | 82.3089 | 70.2872 | 91.6096 | 4178 | 898 | 4161 | 1759 | 398 | 22.6265 | |
| asubramanian-gatk | SNP | * | segdup | * | 98.1237 | 96.8005 | 99.4836 | 92.0357 | 27169 | 898 | 27163 | 141 | 14 | 9.9291 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 62.3929 | 45.5428 | 99.0338 | 45.1898 | 751 | 898 | 615 | 6 | 5 | 83.3333 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 78.5748 | 67.1057 | 94.7725 | 26.6989 | 1834 | 899 | 5602 | 309 | 300 | 97.0874 | |
| gduggal-snapfb | SNP | * | map_siren | homalt | 99.0661 | 98.3701 | 99.7720 | 60.7462 | 54257 | 899 | 54257 | 124 | 41 | 33.0645 | |
| qzeng-custom | SNP | tv | map_l250_m1_e0 | * | 76.9830 | 65.9992 | 92.3526 | 95.3560 | 1747 | 900 | 1739 | 144 | 117 | 81.2500 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7273 | 95.9551 | 99.5663 | 48.2367 | 21350 | 900 | 21351 | 93 | 82 | 88.1720 | |
| gduggal-bwafb | INDEL | I6_15 | HG002complexvar | * | 87.6466 | 81.2187 | 95.1793 | 49.2161 | 3892 | 900 | 4008 | 203 | 196 | 96.5517 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.9824 | 96.8153 | 97.1501 | 58.2231 | 27360 | 900 | 27373 | 803 | 642 | 79.9502 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8203 | 98.1335 | 99.5168 | 73.5903 | 47370 | 901 | 47163 | 229 | 165 | 72.0524 | |
| ltrigg-rtg2 | SNP | * | map_l100_m1_e0 | het | 98.8659 | 98.0136 | 99.7330 | 50.5607 | 44458 | 901 | 44456 | 119 | 8 | 6.7227 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 38.1468 | 23.7733 | 96.4789 | 45.0677 | 281 | 901 | 274 | 10 | 7 | 70.0000 | |
| ckim-dragen | SNP | * | * | het | 99.7355 | 99.9519 | 99.5199 | 24.5349 | 1872686 | 901 | 1873038 | 9035 | 444 | 4.9142 | |
| gduggal-bwaplat | INDEL | I6_15 | * | homalt | 91.2395 | 85.5426 | 97.7493 | 57.4509 | 5337 | 902 | 5342 | 123 | 103 | 83.7398 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 59.1529 | 51.0315 | 70.3486 | 60.3619 | 940 | 902 | 1433 | 604 | 512 | 84.7682 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 59.8228 | 58.1169 | 61.6319 | 75.6941 | 1253 | 903 | 1624 | 1011 | 502 | 49.6538 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0426 | 94.5944 | 99.6209 | 40.6185 | 15802 | 903 | 16029 | 61 | 60 | 98.3607 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0426 | 94.5944 | 99.6209 | 40.6185 | 15802 | 903 | 16029 | 61 | 60 | 98.3607 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 83.7086 | 81.9364 | 85.5593 | 74.2891 | 4096 | 903 | 4100 | 692 | 601 | 86.8497 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 83.7086 | 81.9364 | 85.5593 | 74.2891 | 4096 | 903 | 4100 | 692 | 601 | 86.8497 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1675 | 99.0429 | 99.2924 | 73.5960 | 93545 | 904 | 93452 | 666 | 582 | 87.3874 | |
| ciseli-custom | SNP | tv | map_l125_m2_e0 | homalt | 87.1292 | 84.9759 | 89.3945 | 70.0273 | 5113 | 904 | 5108 | 606 | 472 | 77.8878 | |
| jpowers-varprowl | SNP | ti | map_l100_m2_e0 | het | 97.5401 | 97.0479 | 98.0373 | 72.8725 | 29718 | 904 | 29720 | 595 | 164 | 27.5630 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 73.4008 | 67.1988 | 80.8639 | 50.5130 | 1852 | 904 | 1872 | 443 | 412 | 93.0023 | |
| anovak-vg | SNP | tv | map_l150_m2_e1 | homalt | 87.3530 | 78.1084 | 99.0798 | 73.8866 | 3229 | 905 | 3230 | 30 | 23 | 76.6667 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2233 | 91.0156 | 95.5407 | 66.1212 | 9168 | 905 | 9020 | 421 | 396 | 94.0618 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.8320 | 92.1659 | 99.8018 | 61.7166 | 10647 | 905 | 10577 | 21 | 11 | 52.3810 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.8320 | 92.1659 | 99.8018 | 61.7166 | 10647 | 905 | 10577 | 21 | 11 | 52.3810 | |
| 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 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 4.1314 | 0.0000 | 0.0000 | 39 | 905 | 0 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 40.2163 | 27.6358 | 73.8220 | 36.9637 | 346 | 906 | 141 | 50 | 12 | 24.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4986 | 91.8437 | 95.2143 | 47.2808 | 10202 | 906 | 16374 | 823 | 701 | 85.1762 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | * | 95.6235 | 92.5950 | 98.8568 | 63.0617 | 11329 | 906 | 11328 | 131 | 126 | 96.1832 | |
| hfeng-pmm2 | SNP | tv | * | * | 99.9268 | 99.9066 | 99.9471 | 21.6564 | 968784 | 906 | 968705 | 513 | 42 | 8.1871 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.9906 | 94.9155 | 89.2405 | 50.9643 | 16913 | 906 | 43453 | 5239 | 3113 | 59.4197 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 1.3072 | 0.6579 | 100.0000 | 86.2745 | 6 | 906 | 7 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | map_l100_m0_e0 | homalt | 93.7346 | 88.3329 | 99.8399 | 63.4054 | 6867 | 907 | 6860 | 11 | 11 | 100.0000 | |
| gduggal-snapfb | SNP | * | HG002complexvar | homalt | 99.5552 | 99.6857 | 99.4250 | 21.2913 | 287668 | 907 | 287733 | 1664 | 399 | 23.9784 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e0 | het | 98.8752 | 98.0452 | 99.7194 | 53.1503 | 45492 | 907 | 45491 | 128 | 8 | 6.2500 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | het | 98.8788 | 98.0660 | 99.7052 | 53.2399 | 45991 | 907 | 45990 | 136 | 8 | 5.8824 | |
| ciseli-custom | SNP | tv | map_l250_m2_e1 | het | 60.2121 | 53.7913 | 68.3733 | 93.6004 | 1057 | 908 | 1055 | 488 | 21 | 4.3033 | |
| ckim-vqsr | SNP | tv | map_l250_m2_e0 | het | 68.7313 | 53.1959 | 97.0837 | 97.2198 | 1032 | 908 | 1032 | 31 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.0855 | 97.5186 | 98.6590 | 52.4830 | 35684 | 908 | 35608 | 484 | 451 | 93.1818 | |
| ltrigg-rtg1 | SNP | tv | * | het | 99.7418 | 99.8465 | 99.6372 | 20.0234 | 590796 | 908 | 591027 | 2152 | 50 | 2.3234 | |
| jpowers-varprowl | SNP | ti | map_l100_m2_e1 | het | 97.5492 | 97.0640 | 98.0394 | 72.8908 | 30051 | 909 | 30053 | 601 | 165 | 27.4542 | |
| cchapple-custom | SNP | ti | map_l125_m2_e0 | * | 97.1171 | 96.9958 | 97.2387 | 74.5555 | 29349 | 909 | 29334 | 833 | 230 | 27.6110 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | het | 81.8591 | 70.8654 | 96.8901 | 67.2923 | 2211 | 909 | 2212 | 71 | 24 | 33.8028 | |
| gduggal-bwaplat | SNP | tv | map_l150_m0_e0 | homalt | 47.8809 | 31.4759 | 100.0000 | 91.3619 | 418 | 910 | 418 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5891 | 97.0144 | 98.1706 | 67.3997 | 29570 | 910 | 29515 | 550 | 132 | 24.0000 | |