PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69301-69350 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D16_PLUS | HG002complexvar | homalt | 80.0982 | 75.0865 | 85.8268 | 71.4607 | 217 | 72 | 218 | 36 | 33 | 91.6667 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.2269 | 89.9059 | 98.9842 | 47.2854 | 3438 | 386 | 3508 | 36 | 35 | 97.2222 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e0 | * | 97.6394 | 96.3174 | 98.9983 | 79.7338 | 3557 | 136 | 3558 | 36 | 6 | 16.6667 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.7386 | 93.9847 | 99.6588 | 27.1170 | 10437 | 668 | 10516 | 36 | 36 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.4235 | 97.0785 | 97.7709 | 66.8650 | 1595 | 48 | 1579 | 36 | 31 | 86.1111 | |
| jmaeng-gatk | INDEL | D1_5 | HG002complexvar | het | 99.6962 | 99.5666 | 99.8262 | 56.4161 | 20675 | 90 | 20679 | 36 | 18 | 50.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4782 | 93.6096 | 99.5281 | 29.2918 | 7544 | 515 | 7592 | 36 | 36 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4782 | 93.6096 | 99.5281 | 29.2918 | 7544 | 515 | 7592 | 36 | 36 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 86.0339 | 92.9032 | 80.1105 | 83.0206 | 144 | 11 | 145 | 36 | 36 | 100.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 63.9254 | 60.6557 | 67.5676 | 77.1134 | 74 | 48 | 75 | 36 | 35 | 97.2222 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 66.3507 | 66.6667 | 66.0377 | 73.7624 | 72 | 36 | 70 | 36 | 36 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.7985 | 61.1111 | 78.6982 | 64.0426 | 132 | 84 | 133 | 36 | 35 | 97.2222 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.7538 | 99.9318 | 97.6032 | 55.4303 | 1465 | 1 | 1466 | 36 | 19 | 52.7778 | |
| jpowers-varprowl | SNP | ti | map_l100_m2_e0 | homalt | 99.4381 | 99.0770 | 99.8019 | 64.9829 | 18140 | 169 | 18140 | 36 | 28 | 77.7778 | |
| jpowers-varprowl | SNP | ti | map_l100_m2_e1 | homalt | 99.4410 | 99.0808 | 99.8039 | 64.9625 | 18324 | 170 | 18324 | 36 | 28 | 77.7778 | |
| jpowers-varprowl | SNP | tv | map_l125_m1_e0 | homalt | 98.9113 | 98.4471 | 99.3798 | 71.3800 | 5769 | 91 | 5769 | 36 | 25 | 69.4444 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e0 | homalt | 98.9229 | 98.4544 | 99.3960 | 73.5628 | 5924 | 93 | 5924 | 36 | 25 | 69.4444 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e1 | homalt | 98.9247 | 98.4524 | 99.4016 | 73.5688 | 5980 | 94 | 5980 | 36 | 25 | 69.4444 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.2758 | 93.3345 | 99.4086 | 38.9346 | 5503 | 393 | 6051 | 36 | 34 | 94.4444 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.2758 | 93.3345 | 99.4086 | 38.9346 | 5503 | 393 | 6051 | 36 | 34 | 94.4444 | |
| astatham-gatk | INDEL | * | map_l125_m1_e0 | het | 95.1476 | 93.1835 | 97.1963 | 89.1710 | 1244 | 91 | 1248 | 36 | 5 | 13.8889 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | * | 96.6569 | 96.0389 | 97.2830 | 90.5512 | 1285 | 53 | 1289 | 36 | 7 | 19.4444 | |
| asubramanian-gatk | SNP | tv | map_siren | * | 72.2865 | 56.6449 | 99.8618 | 75.5276 | 26017 | 19913 | 26011 | 36 | 12 | 33.3333 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9869 | 94.4529 | 99.6605 | 29.5910 | 10489 | 616 | 10569 | 36 | 36 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e0 | * | 98.0622 | 98.6506 | 97.4808 | 90.7478 | 1389 | 19 | 1393 | 36 | 7 | 19.4444 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | homalt | 98.7698 | 99.6454 | 97.9094 | 70.3716 | 1686 | 6 | 1686 | 36 | 27 | 75.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.3386 | 99.5196 | 97.1853 | 74.6230 | 1243 | 6 | 1243 | 36 | 27 | 75.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.3386 | 99.5196 | 97.1853 | 74.6230 | 1243 | 6 | 1243 | 36 | 27 | 75.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6716 | 99.6463 | 99.6968 | 50.6032 | 11833 | 42 | 11838 | 36 | 19 | 52.7778 | |
| astatham-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.6735 | 97.5654 | 97.7819 | 66.9248 | 1603 | 40 | 1587 | 36 | 28 | 77.7778 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1342 | 96.9891 | 99.3066 | 64.2892 | 5154 | 160 | 5156 | 36 | 30 | 83.3333 | |
| astatham-gatk | SNP | * | HG002complexvar | homalt | 99.9516 | 99.9158 | 99.9875 | 19.8527 | 288331 | 243 | 288306 | 36 | 34 | 94.4444 | |
| astatham-gatk | SNP | * | HG002compoundhet | * | 99.2284 | 98.6058 | 99.8588 | 41.2826 | 25462 | 360 | 25455 | 36 | 34 | 94.4444 | |
| anovak-vg | INDEL | * | func_cds | het | 74.7761 | 69.6262 | 80.7487 | 43.8438 | 149 | 65 | 151 | 36 | 19 | 52.7778 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 8.0635 | 4.5113 | 37.9310 | 60.2740 | 6 | 127 | 22 | 36 | 4 | 11.1111 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4718 | 99.0131 | 99.9347 | 60.3688 | 55082 | 549 | 55072 | 36 | 19 | 52.7778 | |
| astatham-gatk | SNP | tv | map_l150_m1_e0 | * | 91.6254 | 84.8240 | 99.6125 | 79.0350 | 9256 | 1656 | 9254 | 36 | 13 | 36.1111 | |
| astatham-gatk | SNP | tv | map_l150_m2_e0 | * | 91.6536 | 84.8613 | 99.6277 | 80.3003 | 9636 | 1719 | 9634 | 36 | 13 | 36.1111 | |
| astatham-gatk | SNP | tv | map_l150_m2_e1 | * | 91.6416 | 84.8374 | 99.6324 | 80.3148 | 9758 | 1744 | 9756 | 36 | 13 | 36.1111 | |
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 88.5350 | 0 | 0 | 0 | 36 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 0.0000 | 100.0000 | 0.0000 | 77.9141 | 1 | 0 | 0 | 36 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | HG002complexvar | homalt | 99.9685 | 99.9494 | 99.9875 | 19.8511 | 288428 | 146 | 288403 | 36 | 34 | 94.4444 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.4563 | 82.1519 | 98.1864 | 56.4502 | 1947 | 423 | 1949 | 36 | 33 | 91.6667 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.0966 | 67.4532 | 98.5731 | 65.2719 | 2487 | 1200 | 2487 | 36 | 21 | 58.3333 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| gduggal-bwafb | INDEL | D1_5 | * | hetalt | 93.2065 | 88.0527 | 99.0011 | 79.2540 | 9021 | 1224 | 3568 | 36 | 36 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.7440 | 88.1997 | 97.7819 | 39.9778 | 3356 | 449 | 1587 | 36 | 36 | 100.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.0137 | 98.0306 | 96.0177 | 76.2105 | 896 | 18 | 868 | 36 | 5 | 13.8889 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 33.3333 | 94.2060 | 0 | 0 | 18 | 36 | 24 | 66.6667 | |