PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71551-71600 / 86044 show all | |||||||||||||||
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4796 | 99.6391 | 99.3205 | 59.4883 | 2485 | 9 | 2485 | 17 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0167 | 99.6391 | 98.4019 | 66.3620 | 2485 | 9 | 2463 | 40 | 1 | 2.5000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8256 | 93.9864 | 99.8416 | 36.8816 | 2485 | 159 | 2522 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.0966 | 67.4532 | 98.5731 | 65.2719 | 2487 | 1200 | 2487 | 36 | 21 | 58.3333 | |
| eyeh-varpipe | INDEL | D6_15 | HG002compoundhet | hetalt | 46.3719 | 30.5239 | 96.4480 | 28.8641 | 2488 | 5663 | 3014 | 111 | 110 | 99.0991 | |
| eyeh-varpipe | INDEL | I6_15 | HG002compoundhet | * | 36.3679 | 28.3500 | 50.7094 | 30.4777 | 2488 | 6288 | 2502 | 2432 | 2425 | 99.7122 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3018 | 99.7594 | 98.8483 | 62.1581 | 2488 | 6 | 2489 | 29 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | * | 70.6710 | 66.2407 | 75.7364 | 88.0952 | 2488 | 1268 | 2494 | 799 | 531 | 66.4581 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3488 | 99.7594 | 98.9416 | 60.6388 | 2488 | 6 | 2524 | 27 | 1 | 3.7037 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4567 | 99.7995 | 97.1496 | 66.8736 | 2489 | 5 | 2488 | 73 | 10 | 13.6986 | |
| ckim-gatk | SNP | ti | map_l250_m1_e0 | * | 69.7981 | 54.3568 | 97.4931 | 96.0316 | 2489 | 2090 | 2489 | 64 | 8 | 12.5000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.6262 | 69.9242 | 98.0323 | 76.4744 | 2490 | 1071 | 2491 | 50 | 39 | 78.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.0835 | 99.8396 | 92.5998 | 68.1347 | 2490 | 4 | 2365 | 189 | 7 | 3.7037 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3297 | 97.9167 | 94.7933 | 63.6617 | 2491 | 53 | 2476 | 136 | 15 | 11.0294 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.7510 | 97.9167 | 99.5997 | 47.1770 | 2491 | 53 | 2488 | 10 | 1 | 10.0000 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | het | 76.3189 | 87.6187 | 67.6007 | 87.1885 | 2491 | 352 | 2485 | 1191 | 350 | 29.3871 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3114 | 99.8797 | 98.7495 | 59.4453 | 2491 | 3 | 2527 | 32 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7998 | 99.9198 | 99.6800 | 62.5636 | 2492 | 2 | 2492 | 8 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.0055 | 90.4209 | 93.6466 | 50.9768 | 2492 | 264 | 2491 | 169 | 156 | 92.3077 | |
| ckim-isaac | INDEL | * | map_l100_m1_e0 | * | 81.4370 | 69.4925 | 98.3399 | 83.2871 | 2492 | 1094 | 2488 | 42 | 20 | 47.6190 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4783 | 99.9198 | 99.0408 | 63.4745 | 2492 | 2 | 2478 | 24 | 2 | 8.3333 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.4300 | 93.8983 | 97.0125 | 53.6214 | 2493 | 162 | 3572 | 110 | 76 | 69.0909 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.9198 | 99.9599 | 99.8798 | 58.8255 | 2493 | 1 | 2493 | 3 | 1 | 33.3333 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7799 | 99.9599 | 99.6005 | 62.1560 | 2493 | 1 | 2493 | 10 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.0047 | 94.2890 | 99.8816 | 37.0370 | 2493 | 151 | 2530 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.6801 | 99.9599 | 99.4019 | 61.3678 | 2493 | 1 | 2493 | 15 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7200 | 99.9599 | 99.4812 | 60.3982 | 2493 | 1 | 2493 | 13 | 0 | 0.0000 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8801 | 100.0000 | 99.7606 | 60.2222 | 2494 | 0 | 2500 | 6 | 2 | 33.3333 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7800 | 100.0000 | 99.5609 | 62.1372 | 2494 | 0 | 2494 | 11 | 0 | 0.0000 | |
| jli-custom | INDEL | I16_PLUS | * | het | 95.1311 | 91.7586 | 98.7610 | 68.1314 | 2494 | 224 | 2471 | 31 | 8 | 25.8065 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9685 | 94.3268 | 99.7624 | 46.4589 | 2494 | 150 | 2519 | 6 | 5 | 83.3333 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.1650 | 100.0000 | 98.3438 | 63.2517 | 2494 | 0 | 2494 | 42 | 1 | 2.3810 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9120 | 94.3289 | 99.6406 | 81.3092 | 2495 | 150 | 2495 | 9 | 3 | 33.3333 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 57.9782 | 64.4869 | 52.6629 | 39.1789 | 2495 | 1374 | 4252 | 3822 | 3071 | 80.3506 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 94.3646 | 0.0000 | 0.0000 | 2495 | 149 | 0 | 0 | 0 | ||
| qzeng-custom | INDEL | * | segdup | * | 96.6734 | 97.6526 | 95.7138 | 94.7770 | 2496 | 60 | 2568 | 115 | 34 | 29.5652 | |
| eyeh-varpipe | INDEL | D6_15 | * | hetalt | 46.3037 | 30.5358 | 95.7427 | 56.1168 | 2496 | 5678 | 3036 | 135 | 128 | 94.8148 | |
| astatham-gatk | SNP | tv | map_l250_m2_e0 | * | 92.3931 | 86.6065 | 99.0083 | 90.6397 | 2496 | 386 | 2496 | 25 | 7 | 28.0000 | |
| jpowers-varprowl | SNP | tv | map_l250_m1_e0 | * | 94.0667 | 94.3332 | 93.8017 | 91.6023 | 2497 | 150 | 2497 | 165 | 33 | 20.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3454 | 90.6386 | 94.1176 | 50.5132 | 2498 | 258 | 2496 | 156 | 154 | 98.7179 | |
| ndellapenna-hhga | INDEL | * | segdup | * | 97.8664 | 97.7308 | 98.0024 | 98.7178 | 2498 | 58 | 2502 | 51 | 37 | 72.5490 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0403 | 91.4014 | 98.9810 | 39.0442 | 2498 | 235 | 6994 | 72 | 57 | 79.1667 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 87.2842 | 83.8309 | 91.0342 | 39.5768 | 2499 | 482 | 6681 | 658 | 602 | 91.4894 | |
| egarrison-hhga | INDEL | * | segdup | * | 97.9435 | 97.7700 | 98.1176 | 98.6833 | 2499 | 57 | 2502 | 48 | 36 | 75.0000 | |
| anovak-vg | INDEL | D6_15 | HG002compoundhet | * | 33.7576 | 27.6935 | 43.2221 | 33.8439 | 2501 | 6530 | 2707 | 3556 | 2531 | 71.1755 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 86.6794 | 93.1497 | 81.0496 | 83.5702 | 2502 | 184 | 2502 | 585 | 8 | 1.3675 | |
| ltrigg-rtg1 | INDEL | * | segdup | * | 98.6010 | 97.9264 | 99.2849 | 92.9892 | 2503 | 53 | 2499 | 18 | 5 | 27.7778 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1484 | 94.6692 | 99.7610 | 81.1745 | 2504 | 141 | 2504 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | INDEL | * | segdup | * | 98.4487 | 98.0047 | 98.8968 | 98.3850 | 2505 | 51 | 2510 | 28 | 10 | 35.7143 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.8883 | 93.2614 | 96.5730 | 77.2592 | 2505 | 181 | 2508 | 89 | 6 | 6.7416 | |