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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53001-53050 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | * | map_l150_m2_e0 | homalt | 96.9842 | 97.0894 | 96.8792 | 89.5683 | 467 | 14 | 714 | 23 | 23 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | * | het | 96.8584 | 96.8359 | 96.8808 | 75.4914 | 2632 | 86 | 2609 | 84 | 21 | 25.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.1564 | 95.4426 | 96.8811 | 68.1564 | 2534 | 121 | 2485 | 80 | 69 | 86.2500 | |
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | het | 97.4938 | 98.1141 | 96.8813 | 79.0298 | 4318 | 83 | 4318 | 139 | 26 | 18.7050 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.3899 | 99.9450 | 96.8825 | 62.1062 | 3636 | 2 | 3636 | 117 | 115 | 98.2906 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4857 | 98.0964 | 96.8826 | 61.5590 | 15460 | 300 | 16751 | 539 | 278 | 51.5770 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002compoundhet | * | 84.8012 | 75.3988 | 96.8828 | 44.4562 | 6617 | 2159 | 6620 | 213 | 132 | 61.9718 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e0 | * | 96.9292 | 96.9758 | 96.8828 | 74.5886 | 45310 | 1413 | 45314 | 1458 | 623 | 42.7298 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e0 | * | 96.7549 | 96.6270 | 96.8830 | 81.7123 | 10972 | 383 | 10972 | 353 | 92 | 26.0623 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.4154 | 95.9514 | 96.8839 | 75.2281 | 711 | 30 | 684 | 22 | 19 | 86.3636 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.3472 | 95.8165 | 96.8839 | 75.3835 | 710 | 31 | 684 | 22 | 19 | 86.3636 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | het | 88.5829 | 81.5915 | 96.8846 | 87.2138 | 23921 | 5397 | 23915 | 769 | 55 | 7.1522 | |
| ckim-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.3779 | 99.9176 | 96.8850 | 55.5556 | 1213 | 1 | 1213 | 39 | 39 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e1 | het | 96.7380 | 96.5903 | 96.8862 | 90.0589 | 1898 | 67 | 1898 | 61 | 11 | 18.0328 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8690 | 98.8710 | 96.8872 | 72.0428 | 5780 | 66 | 5727 | 184 | 169 | 91.8478 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8690 | 98.8710 | 96.8872 | 72.0428 | 5780 | 66 | 5727 | 184 | 169 | 91.8478 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9369 | 89.2961 | 96.8873 | 47.7240 | 2461 | 295 | 2459 | 79 | 77 | 97.4684 | |
| jlack-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 92.3729 | 88.2591 | 96.8889 | 46.8085 | 218 | 29 | 436 | 14 | 14 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 74.5401 | 60.5690 | 96.8890 | 74.8497 | 6728 | 4380 | 6727 | 216 | 42 | 19.4444 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.8714 | 98.8734 | 96.8895 | 83.9166 | 6582 | 75 | 6666 | 214 | 40 | 18.6916 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.6093 | 96.3303 | 96.8900 | 85.7581 | 420 | 16 | 405 | 13 | 5 | 38.4615 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | het | 81.8591 | 70.8654 | 96.8901 | 67.2923 | 2211 | 909 | 2212 | 71 | 24 | 33.8028 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 91.9586 | 87.5042 | 96.8908 | 75.6471 | 5196 | 742 | 2680 | 86 | 85 | 98.8372 | |
| eyeh-varpipe | INDEL | I1_5 | map_l250_m2_e1 | * | 97.1292 | 97.3684 | 96.8912 | 95.0078 | 111 | 3 | 187 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | D6_15 | * | homalt | 98.1988 | 99.5416 | 96.8918 | 51.5867 | 6297 | 29 | 6297 | 202 | 199 | 98.5149 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | hetalt | 86.5070 | 78.1323 | 96.8926 | 76.7383 | 7982 | 2234 | 3274 | 105 | 84 | 80.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 86.6114 | 78.3027 | 96.8927 | 91.2636 | 895 | 248 | 1029 | 33 | 27 | 81.8182 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4179 | 97.9487 | 96.8928 | 71.1401 | 30130 | 631 | 30123 | 966 | 497 | 51.4493 | |
| eyeh-varpipe | SNP | * | map_l250_m0_e0 | * | 98.0582 | 99.2506 | 96.8941 | 94.2786 | 2119 | 16 | 2059 | 66 | 4 | 6.0606 | |
| ckim-dragen | SNP | tv | segdup | * | 98.3491 | 99.8476 | 96.8949 | 93.2025 | 8519 | 13 | 8519 | 273 | 6 | 2.1978 | |
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | homalt | 97.0129 | 97.1311 | 96.8950 | 86.7449 | 711 | 21 | 1061 | 34 | 31 | 91.1765 | |
| ckim-gatk | SNP | tv | map_l150_m2_e1 | * | 80.0038 | 68.1273 | 96.8955 | 89.4103 | 7836 | 3666 | 7834 | 251 | 9 | 3.5857 | |
| ckim-dragen | SNP | * | map_l250_m2_e1 | * | 97.2818 | 97.6712 | 96.8956 | 89.8498 | 7801 | 186 | 7803 | 250 | 32 | 12.8000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.7654 | 96.6355 | 96.8956 | 63.2180 | 3102 | 108 | 3090 | 99 | 94 | 94.9495 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 92.1538 | 87.8543 | 96.8958 | 47.4971 | 217 | 30 | 437 | 14 | 14 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e0 | het | 96.7209 | 96.5464 | 96.8960 | 89.9730 | 1873 | 67 | 1873 | 60 | 11 | 18.3333 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.2657 | 99.6737 | 96.8970 | 47.8485 | 2749 | 9 | 2748 | 88 | 17 | 19.3182 | |
| qzeng-custom | SNP | ti | map_l150_m2_e1 | * | 80.4222 | 68.7352 | 96.8977 | 87.0560 | 14244 | 6479 | 14149 | 453 | 387 | 85.4305 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | * | 96.4662 | 96.0383 | 96.8979 | 94.3332 | 2109 | 87 | 2905 | 93 | 66 | 70.9677 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0423 | 99.2126 | 96.8992 | 68.9904 | 126 | 1 | 125 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.7100 | 92.6174 | 96.8992 | 76.3736 | 138 | 11 | 125 | 4 | 3 | 75.0000 | |
| cchapple-custom | INDEL | D6_15 | map_siren | homalt | 96.5251 | 96.1538 | 96.8992 | 78.3557 | 125 | 5 | 125 | 4 | 2 | 50.0000 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e1 | * | 96.9532 | 97.0065 | 96.9000 | 74.6410 | 45789 | 1413 | 45793 | 1465 | 623 | 42.5256 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | het | 88.6934 | 81.7679 | 96.9006 | 87.2177 | 24236 | 5404 | 24230 | 775 | 56 | 7.2258 | |
| mlin-fermikit | INDEL | * | HG002complexvar | het | 95.8810 | 94.8801 | 96.9032 | 52.4432 | 43846 | 2366 | 43401 | 1387 | 1299 | 93.6554 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 68.8650 | 53.4107 | 96.9038 | 66.6154 | 1472 | 1284 | 1471 | 47 | 36 | 76.5957 | |
| gduggal-snapplat | SNP | * | map_siren | het | 96.5899 | 96.2777 | 96.9043 | 72.4626 | 87604 | 3387 | 87710 | 2802 | 1309 | 46.7166 | |
| jmaeng-gatk | INDEL | I1_5 | map_siren | het | 97.6442 | 98.3938 | 96.9060 | 85.7250 | 1654 | 27 | 1660 | 53 | 5 | 9.4340 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.1637 | 95.4315 | 96.9072 | 51.1335 | 188 | 9 | 188 | 6 | 6 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.5761 | 98.2544 | 96.9072 | 81.0824 | 394 | 7 | 376 | 12 | 5 | 41.6667 | |