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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37801-37850 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I1_5 | map_l150_m2_e0 | het | 51.4023 | 43.0421 | 63.7931 | 93.5841 | 133 | 176 | 148 | 84 | 8 | 9.5238 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 51.4209 | 36.9403 | 84.5736 | 68.1324 | 2178 | 3718 | 2182 | 398 | 329 | 82.6633 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 51.4209 | 36.9403 | 84.5736 | 68.1324 | 2178 | 3718 | 2182 | 398 | 329 | 82.6633 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 51.4286 | 34.6154 | 100.0000 | 86.1538 | 9 | 17 | 9 | 0 | 0 | ||
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 51.4286 | 64.2857 | 42.8571 | 93.8442 | 27 | 15 | 21 | 28 | 1 | 3.5714 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 51.4512 | 86.6667 | 36.5854 | 95.2982 | 13 | 2 | 15 | 26 | 2 | 7.6923 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | homalt | 51.4655 | 44.9548 | 60.1815 | 60.0161 | 597 | 731 | 597 | 395 | 356 | 90.1266 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 51.4833 | 49.7958 | 53.2893 | 59.9443 | 21579 | 21756 | 21523 | 18866 | 18163 | 96.2737 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 51.4864 | 39.5122 | 73.8739 | 83.1563 | 81 | 124 | 82 | 29 | 28 | 96.5517 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 51.4864 | 39.5122 | 73.8739 | 83.1563 | 81 | 124 | 82 | 29 | 28 | 96.5517 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 51.5152 | 34.6939 | 100.0000 | 32.0000 | 17 | 32 | 17 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 51.5337 | 36.8421 | 85.7143 | 98.8942 | 7 | 12 | 6 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 51.5337 | 36.8421 | 85.7143 | 98.9114 | 7 | 12 | 6 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m0_e0 | het | 51.5385 | 34.8958 | 98.5294 | 81.9629 | 67 | 125 | 67 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I6_15 | HG002complexvar | homalt | 51.5500 | 45.4695 | 59.5078 | 51.7279 | 552 | 662 | 532 | 362 | 333 | 91.9890 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 51.5543 | 84.6990 | 37.0542 | 41.5748 | 1871 | 338 | 2161 | 3671 | 3393 | 92.4271 | |
| asubramanian-gatk | SNP | ti | map_l125_m2_e0 | het | 51.5556 | 34.7637 | 99.7264 | 92.2284 | 6562 | 12314 | 6560 | 18 | 6 | 33.3333 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.5638 | 41.4948 | 68.0851 | 72.2550 | 161 | 227 | 160 | 75 | 74 | 98.6667 | |
| qzeng-custom | INDEL | D16_PLUS | map_l125_m2_e1 | * | 51.5647 | 89.2857 | 36.2500 | 95.6873 | 25 | 3 | 29 | 51 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 51.5722 | 36.5269 | 87.6923 | 81.3754 | 61 | 106 | 57 | 8 | 4 | 50.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l250_m2_e1 | * | 51.5723 | 35.9649 | 91.1111 | 94.1710 | 41 | 73 | 41 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 51.5950 | 42.4685 | 65.7179 | 59.2998 | 2123 | 2876 | 2101 | 1096 | 789 | 71.9891 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 51.5950 | 42.4685 | 65.7179 | 59.2998 | 2123 | 2876 | 2101 | 1096 | 789 | 71.9891 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 51.6345 | 52.3810 | 50.9091 | 64.2857 | 330 | 300 | 336 | 324 | 243 | 75.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 51.6425 | 35.4076 | 95.3714 | 40.1032 | 899 | 1640 | 886 | 43 | 33 | 76.7442 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 51.6493 | 35.3933 | 95.5224 | 83.2080 | 63 | 115 | 64 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | * | segdup | hetalt | 51.6497 | 35.3846 | 95.5882 | 96.8649 | 46 | 84 | 65 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | HG002compoundhet | het | 51.6510 | 42.9412 | 64.7929 | 62.2549 | 365 | 485 | 4553 | 2474 | 1995 | 80.6386 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 51.6619 | 87.8340 | 36.5923 | 82.4916 | 1249 | 173 | 1280 | 2218 | 108 | 4.8693 | |
| mlin-fermikit | SNP | tv | map_l125_m0_e0 | * | 51.6639 | 38.2748 | 79.4606 | 60.5371 | 2538 | 4093 | 2534 | 655 | 574 | 87.6336 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 51.6683 | 38.0989 | 80.2508 | 24.4970 | 501 | 814 | 512 | 126 | 126 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 51.6769 | 55.4825 | 48.3599 | 47.7729 | 506 | 406 | 516 | 551 | 538 | 97.6407 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 51.6840 | 41.4224 | 68.7044 | 73.6538 | 763 | 1079 | 753 | 343 | 297 | 86.5889 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 51.7017 | 43.2260 | 64.3120 | 56.8434 | 1758 | 2309 | 1748 | 970 | 697 | 71.8557 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 51.7221 | 46.8234 | 57.7656 | 39.6200 | 17747 | 20155 | 24726 | 18078 | 14175 | 78.4102 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e1 | hetalt | 51.7241 | 34.8837 | 100.0000 | 90.7407 | 15 | 28 | 15 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | map_l100_m2_e1 | hetalt | 51.7241 | 34.8837 | 100.0000 | 90.6832 | 15 | 28 | 15 | 0 | 0 | ||
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 51.7241 | 93.7500 | 35.7143 | 94.3396 | 15 | 1 | 15 | 27 | 8 | 29.6296 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | * | 51.7241 | 45.4545 | 60.0000 | 94.3966 | 80 | 96 | 78 | 52 | 39 | 75.0000 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | hetalt | 51.7241 | 34.8837 | 100.0000 | 94.6237 | 15 | 28 | 15 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | hetalt | 51.7241 | 34.8837 | 100.0000 | 94.6237 | 15 | 28 | 15 | 0 | 0 | ||
| qzeng-custom | INDEL | D16_PLUS | map_l125_m2_e0 | * | 51.7369 | 92.5926 | 35.8974 | 95.7470 | 25 | 2 | 28 | 50 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | hetalt | 51.7417 | 35.1859 | 97.7226 | 44.3646 | 2868 | 5283 | 2875 | 67 | 52 | 77.6119 | |
| mlin-fermikit | SNP | * | map_l250_m1_e0 | homalt | 51.7475 | 41.7783 | 67.9657 | 72.7453 | 1029 | 1434 | 1029 | 485 | 445 | 91.7526 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 51.7623 | 87.4465 | 36.7612 | 44.5578 | 2452 | 352 | 2438 | 4194 | 3961 | 94.4444 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 51.7650 | 93.7381 | 35.7550 | 67.8055 | 494 | 33 | 502 | 902 | 894 | 99.1131 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 51.7766 | 41.1290 | 69.8630 | 99.9464 | 51 | 73 | 51 | 22 | 18 | 81.8182 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 51.7828 | 35.4521 | 96.0081 | 54.3492 | 2415 | 4397 | 2862 | 119 | 117 | 98.3193 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.7848 | 41.9187 | 67.7249 | 51.1628 | 402 | 557 | 384 | 183 | 140 | 76.5027 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 51.7864 | 37.7083 | 82.6389 | 69.0323 | 181 | 299 | 119 | 25 | 25 | 100.0000 | |