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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78201-78250 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | ti | map_l100_m2_e1 | het | 99.3494 | 99.1473 | 99.5523 | 65.6527 | 30696 | 264 | 30688 | 138 | 83 | 60.1449 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.6681 | 94.0715 | 99.4120 | 57.9684 | 14503 | 914 | 14541 | 86 | 84 | 97.6744 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.8043 | 99.9450 | 97.6894 | 60.7922 | 3636 | 2 | 3636 | 86 | 84 | 97.6744 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3151 | 97.0053 | 97.6268 | 51.2109 | 1652 | 51 | 5389 | 131 | 84 | 64.1221 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.5217 | 98.2474 | 96.8067 | 41.4913 | 6615 | 118 | 10095 | 333 | 84 | 25.2252 | |
| ltrigg-rtg2 | INDEL | * | HG002complexvar | hetalt | 95.5730 | 93.2685 | 97.9943 | 75.0000 | 3450 | 249 | 4153 | 85 | 84 | 98.8235 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 57.9710 | 62.5000 | 54.0541 | 80.8884 | 100 | 60 | 100 | 85 | 84 | 98.8235 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | homalt | 86.9565 | 99.6564 | 77.1277 | 84.9600 | 290 | 1 | 290 | 86 | 84 | 97.6744 | |
| jli-custom | INDEL | D6_15 | * | het | 99.0350 | 98.8958 | 99.1747 | 58.3418 | 11464 | 128 | 11416 | 95 | 84 | 88.4211 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 33.1255 | 25.5937 | 46.9388 | 67.3333 | 97 | 282 | 115 | 130 | 84 | 64.6154 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 35.0904 | 39.3443 | 31.6667 | 53.3679 | 48 | 74 | 57 | 123 | 84 | 68.2927 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | hetalt | 95.4215 | 93.3225 | 97.6172 | 69.3301 | 3452 | 247 | 3687 | 90 | 84 | 93.3333 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2099 | 97.0828 | 99.3634 | 67.3172 | 15608 | 469 | 15609 | 100 | 84 | 84.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2099 | 97.0828 | 99.3634 | 67.3172 | 15608 | 469 | 15609 | 100 | 84 | 84.0000 | |
| bgallagher-sentieon | SNP | * | HG002complexvar | * | 99.9538 | 99.9332 | 99.9744 | 19.0217 | 753877 | 504 | 753722 | 193 | 84 | 43.5233 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.3923 | 99.2303 | 97.5682 | 62.2540 | 3610 | 28 | 3611 | 90 | 84 | 93.3333 | |
| astatham-gatk | INDEL | I16_PLUS | * | * | 97.4870 | 96.7226 | 98.2635 | 70.9237 | 6168 | 209 | 6168 | 109 | 84 | 77.0642 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.7062 | 94.1759 | 97.2870 | 68.5937 | 3331 | 206 | 3335 | 93 | 84 | 90.3226 | |
| gduggal-bwafb | INDEL | I6_15 | HG002complexvar | homalt | 92.1427 | 91.4333 | 92.8631 | 43.3935 | 1110 | 104 | 1106 | 85 | 84 | 98.8235 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 18.4985 | 11.8280 | 42.4242 | 51.4706 | 22 | 164 | 70 | 95 | 84 | 88.4211 | |
| gduggal-bwafb | INDEL | * | HG002complexvar | hetalt | 85.9574 | 79.3998 | 93.6957 | 80.8679 | 2937 | 762 | 1293 | 87 | 84 | 96.5517 | |
| gduggal-bwafb | SNP | ti | map_l125_m1_e0 | * | 98.9304 | 98.8478 | 99.0132 | 72.1354 | 28997 | 338 | 28997 | 289 | 84 | 29.0657 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | het | 81.9141 | 84.1429 | 79.8002 | 62.7770 | 3932 | 741 | 3994 | 1011 | 84 | 8.3086 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 65.3542 | 82.1429 | 54.2636 | 73.2919 | 138 | 30 | 140 | 118 | 84 | 71.1864 | |
| gduggal-bwavard | SNP | ti | map_l100_m0_e0 | het | 93.7781 | 97.4183 | 90.4002 | 80.9729 | 13622 | 361 | 13532 | 1437 | 84 | 5.8455 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e0 | het | 93.6309 | 97.7486 | 89.8461 | 85.7790 | 12591 | 290 | 12494 | 1412 | 84 | 5.9490 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.3850 | 94.7826 | 88.2225 | 88.3133 | 2507 | 138 | 2442 | 326 | 84 | 25.7669 | |
| egarrison-hhga | INDEL | * | HG002complexvar | hetalt | 86.1120 | 77.4804 | 96.9079 | 71.2204 | 2866 | 833 | 2852 | 91 | 84 | 92.3077 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.0535 | 96.5032 | 97.6101 | 85.2011 | 4940 | 179 | 4942 | 121 | 84 | 69.4215 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.4767 | 93.8476 | 95.1143 | 74.6842 | 2044 | 134 | 1830 | 94 | 84 | 89.3617 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2550 | 99.5338 | 98.9778 | 48.7637 | 8327 | 39 | 8327 | 86 | 84 | 97.6744 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0270 | 99.5781 | 96.5235 | 48.1882 | 2360 | 10 | 2360 | 85 | 84 | 98.8235 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 76.5743 | 94.4099 | 64.4068 | 35.1648 | 152 | 9 | 152 | 84 | 84 | 100.0000 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 21.3429 | 95.1903 | 0 | 0 | 89 | 328 | 84 | 25.6098 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.7631 | 99.4231 | 94.2417 | 48.2590 | 3964 | 23 | 3977 | 243 | 84 | 34.5679 | |
| ckim-dragen | INDEL | D16_PLUS | * | homalt | 97.0588 | 99.4681 | 94.7635 | 72.2066 | 1683 | 9 | 1683 | 93 | 84 | 90.3226 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.0496 | 99.2794 | 93.0233 | 76.1666 | 1240 | 9 | 1240 | 93 | 84 | 90.3226 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.0496 | 99.2794 | 93.0233 | 76.1666 | 1240 | 9 | 1240 | 93 | 84 | 90.3226 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3332 | 99.5580 | 99.1095 | 50.6288 | 10361 | 46 | 10350 | 93 | 84 | 90.3226 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | * | 89.2398 | 81.7300 | 98.2693 | 78.3708 | 59175 | 13228 | 59164 | 1042 | 84 | 8.0614 | |
| ckim-gatk | SNP | tv | * | * | 99.5705 | 99.3991 | 99.7425 | 27.2376 | 963863 | 5827 | 963776 | 2488 | 84 | 3.3762 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 17.7419 | 15.4930 | 20.7547 | 46.1929 | 22 | 120 | 22 | 84 | 84 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 32.5581 | 87.5000 | 20.0000 | 45.0262 | 21 | 3 | 21 | 84 | 84 | 100.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | * | 95.4295 | 97.2861 | 93.6425 | 90.9971 | 7026 | 196 | 7026 | 477 | 84 | 17.6101 | |
| ghariani-varprowl | SNP | ti | HG002complexvar | het | 99.4535 | 99.6801 | 99.2280 | 19.8744 | 313754 | 1007 | 313878 | 2442 | 84 | 3.4398 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 31.6043 | 34.3302 | 29.2795 | 88.3797 | 2204 | 4216 | 2292 | 5536 | 84 | 1.5173 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 31.6043 | 34.3302 | 29.2795 | 88.3797 | 2204 | 4216 | 2292 | 5536 | 84 | 1.5173 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 86.7685 | 79.7558 | 95.1333 | 68.7830 | 14502 | 3681 | 14524 | 743 | 84 | 11.3055 | |
| gduggal-snapvard | INDEL | D6_15 | map_siren | het | 75.8046 | 83.5714 | 69.3587 | 81.7036 | 234 | 46 | 292 | 129 | 84 | 65.1163 | |