PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8451-8500 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4252 | 93.5104 | 99.5276 | 29.6399 | 7536 | 523 | 7584 | 36 | 36 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e0 | homalt | 99.7107 | 99.5667 | 99.8552 | 72.6188 | 7583 | 33 | 7584 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e1 | * | 95.0781 | 94.9293 | 95.2273 | 91.7069 | 7582 | 405 | 7582 | 380 | 95 | 25.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.0004 | 93.1933 | 98.9817 | 26.3036 | 7544 | 551 | 7582 | 78 | 72 | 92.3077 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.9626 | 93.3863 | 98.6851 | 30.5076 | 7526 | 533 | 7580 | 101 | 97 | 96.0396 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.9626 | 93.3863 | 98.6851 | 30.5076 | 7526 | 533 | 7580 | 101 | 97 | 96.0396 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3117 | 93.2057 | 99.6319 | 25.1721 | 7545 | 550 | 7579 | 28 | 28 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e0 | homalt | 99.6909 | 99.5011 | 99.8814 | 70.4694 | 7578 | 38 | 7578 | 9 | 7 | 77.7778 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m2_e0 | homalt | 99.7039 | 99.4879 | 99.9209 | 70.3819 | 7577 | 39 | 7578 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | ti | map_l150_m2_e0 | homalt | 99.7105 | 99.5011 | 99.9209 | 69.8737 | 7578 | 38 | 7578 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | map_l150_m2_e0 | homalt | 99.6974 | 99.4879 | 99.9077 | 69.7016 | 7577 | 39 | 7577 | 7 | 6 | 85.7143 | |
| gduggal-snapfb | SNP | * | map_l150_m0_e0 | het | 94.3991 | 95.4156 | 93.4040 | 78.0920 | 7576 | 364 | 7576 | 535 | 258 | 48.2243 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e0 | homalt | 99.6907 | 99.4617 | 99.9209 | 72.2145 | 7575 | 41 | 7575 | 6 | 6 | 100.0000 | |
| ciseli-custom | SNP | tv | HG002compoundhet | * | 66.9226 | 84.5568 | 55.3744 | 51.6390 | 7545 | 1378 | 7573 | 6103 | 515 | 8.4385 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | hetalt | 96.0843 | 92.8720 | 99.5267 | 21.0341 | 7570 | 581 | 7570 | 36 | 35 | 97.2222 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e1 | homalt | 58.0606 | 40.9052 | 100.0000 | 78.3356 | 7565 | 10929 | 7565 | 0 | 0 | ||
| gduggal-bwavard | SNP | ti | map_l150_m0_e0 | * | 92.8160 | 97.0360 | 88.9477 | 85.9871 | 7628 | 233 | 7565 | 940 | 50 | 5.3192 | |
| jlack-gatk | SNP | ti | map_l150_m2_e1 | homalt | 99.0828 | 98.2972 | 99.8811 | 71.3252 | 7562 | 131 | 7562 | 9 | 7 | 77.7778 | |
| cchapple-custom | SNP | * | map_l250_m2_e0 | * | 96.1788 | 95.9417 | 96.4172 | 90.1898 | 7565 | 320 | 7562 | 281 | 65 | 23.1317 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3442 | 92.9463 | 100.0000 | 24.7911 | 7524 | 571 | 7560 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | map_l250_m2_e1 | * | 97.1847 | 94.6538 | 99.8547 | 80.7686 | 7560 | 427 | 7560 | 11 | 4 | 36.3636 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e1 | homalt | 99.0436 | 98.2712 | 99.8283 | 75.6142 | 7560 | 133 | 7560 | 13 | 10 | 76.9231 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 83.2118 | 71.5131 | 99.4866 | 35.3667 | 7491 | 2984 | 7558 | 39 | 39 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l150_m2_e1 | homalt | 99.0304 | 98.2452 | 99.8283 | 73.7883 | 7558 | 135 | 7558 | 13 | 10 | 76.9231 | |
| dgrover-gatk | SNP | ti | map_l150_m2_e0 | homalt | 99.5587 | 99.2253 | 99.8942 | 70.9853 | 7557 | 59 | 7557 | 8 | 6 | 75.0000 | |
| ckim-dragen | SNP | ti | map_l150_m2_e0 | homalt | 99.4533 | 99.1203 | 99.7886 | 67.8815 | 7549 | 67 | 7554 | 16 | 15 | 93.7500 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | hetalt | 96.2297 | 93.1910 | 99.4731 | 25.6779 | 7596 | 555 | 7552 | 40 | 40 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e0 | * | 97.7096 | 95.7641 | 99.7358 | 83.5094 | 7551 | 334 | 7551 | 20 | 10 | 50.0000 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e1 | * | 94.6649 | 94.5286 | 94.8016 | 89.9551 | 7550 | 437 | 7550 | 414 | 185 | 44.6860 | |
| gduggal-bwaplat | INDEL | D1_5 | * | hetalt | 83.8440 | 73.7042 | 97.2186 | 75.9425 | 7551 | 2694 | 7550 | 216 | 214 | 99.0741 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4144 | 93.0885 | 99.9868 | 28.9050 | 7502 | 557 | 7550 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4144 | 93.0885 | 99.9868 | 28.9050 | 7502 | 557 | 7550 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_l150_m0_e0 | het | 97.3195 | 95.1134 | 99.6305 | 65.8586 | 7552 | 388 | 7549 | 28 | 6 | 21.4286 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e0 | homalt | 99.3810 | 99.0809 | 99.6830 | 73.3835 | 7546 | 70 | 7546 | 24 | 23 | 95.8333 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e1 | * | 86.3822 | 95.4176 | 78.9099 | 91.6016 | 7621 | 366 | 7543 | 2016 | 102 | 5.0595 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4613 | 99.2277 | 99.6960 | 43.2493 | 6681 | 52 | 7543 | 23 | 17 | 73.9130 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7120 | 95.2896 | 98.1776 | 52.4952 | 5462 | 270 | 7542 | 140 | 133 | 95.0000 | |
| eyeh-varpipe | SNP | * | * | hetalt | 99.5795 | 99.8852 | 99.2757 | 41.9596 | 870 | 1 | 7539 | 55 | 52 | 94.5455 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m0_e0 | * | 97.8455 | 95.9038 | 99.8675 | 65.1893 | 7539 | 322 | 7538 | 10 | 4 | 40.0000 | |
| gduggal-bwafb | SNP | ti | map_l150_m2_e0 | homalt | 99.3999 | 98.9496 | 99.8542 | 74.6089 | 7536 | 80 | 7536 | 11 | 6 | 54.5455 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002compoundhet | hetalt | 84.6945 | 73.7471 | 99.4587 | 70.0372 | 7534 | 2682 | 7533 | 41 | 39 | 95.1220 | |
| gduggal-bwafb | INDEL | D6_15 | HG002compoundhet | het | 92.7842 | 87.3832 | 98.8969 | 23.0186 | 748 | 108 | 7531 | 84 | 67 | 79.7619 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 86.2959 | 82.2171 | 90.8006 | 44.5699 | 3204 | 693 | 7531 | 763 | 673 | 88.2045 | |
| astatham-gatk | SNP | ti | map_l150_m2_e0 | homalt | 99.3599 | 98.8445 | 99.8806 | 70.6148 | 7528 | 88 | 7528 | 9 | 8 | 88.8889 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.8809 | 89.9476 | 98.1740 | 49.0700 | 7552 | 844 | 7527 | 140 | 92 | 65.7143 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 56.1720 | 50.7947 | 62.8225 | 45.1920 | 7510 | 7275 | 7523 | 4452 | 4009 | 90.0494 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | het | 85.0213 | 95.7305 | 76.4670 | 87.2666 | 7601 | 339 | 7519 | 2314 | 131 | 5.6612 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | het | 94.6235 | 94.6474 | 94.5997 | 86.3683 | 7515 | 425 | 7515 | 429 | 135 | 31.4685 | |
| jpowers-varprowl | SNP | ti | segdup | homalt | 99.6282 | 99.9600 | 99.2985 | 89.1736 | 7502 | 3 | 7502 | 53 | 36 | 67.9245 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.9446 | 92.7410 | 99.3774 | 27.6985 | 7474 | 585 | 7502 | 47 | 46 | 97.8723 | |