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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78201-78250 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | ti | func_cds | het | 99.9118 | 99.9647 | 99.8590 | 25.0066 | 8501 | 3 | 8499 | 12 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | ti | func_cds | het | 99.8707 | 99.9647 | 99.7769 | 24.1158 | 8501 | 3 | 8499 | 19 | 0 | 0.0000 | |
| jlack-gatk | SNP | ti | func_cds | het | 99.1254 | 99.9765 | 98.2886 | 33.6861 | 8502 | 2 | 8500 | 148 | 1 | 0.6757 | |
| jli-custom | SNP | ti | func_cds | het | 99.8825 | 99.9530 | 99.8121 | 22.8972 | 8500 | 4 | 8500 | 16 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | segdup | * | 98.9694 | 99.5663 | 98.3796 | 89.2053 | 8495 | 37 | 8500 | 140 | 20 | 14.2857 | |
| ndellapenna-hhga | SNP | ti | func_cds | het | 99.9118 | 99.9530 | 99.8708 | 22.7256 | 8500 | 4 | 8500 | 11 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | ti | func_cds | het | 99.6775 | 99.9530 | 99.4036 | 28.0582 | 8500 | 4 | 8500 | 51 | 1 | 1.9608 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.3637 | 98.3285 | 94.4759 | 62.6464 | 9530 | 162 | 8500 | 497 | 105 | 21.1268 | |
| gduggal-bwafb | SNP | ti | func_cds | het | 99.4792 | 99.9530 | 99.0099 | 30.9221 | 8500 | 4 | 8500 | 85 | 2 | 2.3529 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 79.1180 | 67.8700 | 94.8349 | 76.6136 | 8498 | 4023 | 8501 | 463 | 140 | 30.2376 | |
| rpoplin-dv42 | SNP | tv | segdup | * | 99.6835 | 99.6835 | 99.6834 | 91.0590 | 8505 | 27 | 8501 | 27 | 12 | 44.4444 | |
| egarrison-hhga | SNP | ti | func_cds | het | 99.9236 | 99.9647 | 99.8825 | 23.1721 | 8501 | 3 | 8501 | 10 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | func_cds | het | 99.3804 | 99.9647 | 98.8029 | 32.2466 | 8501 | 3 | 8501 | 103 | 1 | 0.9709 | |
| cchapple-custom | SNP | ti | func_cds | het | 99.7946 | 99.9177 | 99.6718 | 27.6397 | 8497 | 7 | 8504 | 28 | 1 | 3.5714 | |
| ltrigg-rtg2 | SNP | tv | segdup | * | 98.9872 | 99.6132 | 98.3690 | 88.4663 | 8499 | 33 | 8504 | 141 | 21 | 14.8936 | |
| raldana-dualsentieon | SNP | tv | segdup | * | 99.5671 | 99.7656 | 99.3693 | 91.0002 | 8512 | 20 | 8508 | 54 | 6 | 11.1111 | |
| hfeng-pmm1 | SNP | tv | segdup | * | 99.7305 | 99.7773 | 99.6837 | 90.5181 | 8513 | 19 | 8509 | 27 | 6 | 22.2222 | |
| jlack-gatk | SNP | tv | segdup | * | 97.7319 | 99.7890 | 95.7578 | 94.5195 | 8514 | 18 | 8510 | 377 | 7 | 1.8568 | |
| hfeng-pmm3 | SNP | tv | segdup | * | 99.7247 | 99.7890 | 99.6604 | 90.6553 | 8514 | 18 | 8510 | 29 | 5 | 17.2414 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002compoundhet | * | 94.8572 | 94.2753 | 95.4464 | 36.1821 | 8514 | 517 | 8510 | 406 | 403 | 99.2611 | |
| bgallagher-sentieon | SNP | tv | segdup | * | 99.4858 | 99.8125 | 99.1612 | 91.3387 | 8516 | 16 | 8512 | 72 | 6 | 8.3333 | |
| hfeng-pmm2 | SNP | tv | segdup | * | 99.6780 | 99.8125 | 99.5439 | 91.3819 | 8516 | 16 | 8512 | 39 | 4 | 10.2564 | |
| jli-custom | SNP | tv | segdup | * | 99.5673 | 99.7773 | 99.3581 | 90.4270 | 8513 | 19 | 8513 | 55 | 6 | 10.9091 | |
| dgrover-gatk | SNP | tv | segdup | * | 99.6606 | 99.8359 | 99.4859 | 91.6354 | 8518 | 14 | 8514 | 44 | 6 | 13.6364 | |
| ckim-dragen | SNP | tv | segdup | * | 98.3491 | 99.8476 | 96.8949 | 93.2025 | 8519 | 13 | 8519 | 273 | 6 | 2.1978 | |
| ckim-vqsr | SNP | tv | map_l125_m1_e0 | * | 69.0966 | 53.2030 | 98.5313 | 88.9389 | 8521 | 7495 | 8520 | 127 | 1 | 0.7874 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | * | 74.1830 | 69.7262 | 79.2484 | 64.3487 | 8531 | 3704 | 8520 | 2231 | 2171 | 97.3106 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.0217 | 94.2549 | 97.8560 | 49.0716 | 3675 | 224 | 8535 | 187 | 123 | 65.7754 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 93.3528 | 88.7263 | 98.4883 | 45.1727 | 8248 | 1048 | 8535 | 131 | 123 | 93.8931 | |
| ckim-gatk | SNP | tv | map_l125_m2_e1 | het | 87.8849 | 81.0480 | 95.9816 | 88.0637 | 8553 | 2000 | 8551 | 358 | 15 | 4.1899 | |
| ckim-vqsr | INDEL | D6_15 | HG002compoundhet | * | 95.5291 | 94.7736 | 96.2967 | 36.1965 | 8559 | 472 | 8555 | 329 | 326 | 99.0881 | |
| qzeng-custom | INDEL | D6_15 | HG002compoundhet | het | 88.1260 | 94.5093 | 82.5504 | 31.0108 | 809 | 47 | 8558 | 1809 | 764 | 42.2333 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.5310 | 94.8178 | 96.2551 | 36.1757 | 8563 | 468 | 8559 | 333 | 330 | 99.0991 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e0 | het | 62.0977 | 45.3857 | 98.2903 | 64.2784 | 8567 | 10309 | 8566 | 149 | 7 | 4.6980 | |
| jmaeng-gatk | SNP | tv | map_l125_m2_e1 | het | 87.8827 | 81.2376 | 95.7119 | 88.2796 | 8573 | 1980 | 8571 | 384 | 13 | 3.3854 | |
| mlin-fermikit | SNP | * | map_l100_m0_e0 | het | 57.3538 | 40.4669 | 98.4278 | 57.0061 | 8581 | 12624 | 8577 | 137 | 4 | 2.9197 | |
| qzeng-custom | INDEL | D6_15 | HG002compoundhet | * | 81.7565 | 82.9255 | 80.6200 | 31.3934 | 7489 | 1542 | 8582 | 2063 | 963 | 46.6796 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.1524 | 77.3435 | 97.2257 | 44.5184 | 8589 | 2516 | 8586 | 245 | 240 | 97.9592 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.3046 | 77.4770 | 97.4025 | 63.5175 | 8586 | 2496 | 8587 | 229 | 186 | 81.2227 | |
| gduggal-bwaplat | SNP | * | map_l125_m2_e0 | homalt | 66.1790 | 49.4619 | 99.9651 | 80.4937 | 8594 | 8781 | 8587 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9978 | 94.1236 | 97.9483 | 47.9502 | 6503 | 406 | 8593 | 180 | 169 | 93.8889 | |
| astatham-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.7191 | 95.2165 | 96.2270 | 36.2319 | 8599 | 432 | 8595 | 337 | 334 | 99.1098 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.1375 | 89.8020 | 77.3938 | 60.0848 | 3628 | 412 | 8600 | 2512 | 1214 | 48.3280 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.8086 | 95.3161 | 96.3062 | 36.3267 | 8608 | 423 | 8604 | 330 | 327 | 99.0909 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | * | 98.0032 | 96.5370 | 99.5145 | 49.4980 | 8614 | 309 | 8609 | 42 | 11 | 26.1905 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.8359 | 92.4591 | 99.4688 | 63.5748 | 8595 | 701 | 8613 | 46 | 42 | 91.3043 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 70.7753 | 78.9709 | 64.1209 | 53.4898 | 4420 | 1177 | 8614 | 4820 | 4189 | 86.9087 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.5008 | 99.2225 | 67.7227 | 54.9332 | 8295 | 65 | 8615 | 4106 | 4035 | 98.2708 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.5008 | 99.2225 | 67.7227 | 54.9332 | 8295 | 65 | 8615 | 4106 | 4035 | 98.2708 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | * | 97.5434 | 95.9362 | 99.2054 | 30.5780 | 8664 | 367 | 8615 | 69 | 63 | 91.3043 | |