PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12151-12200 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | hetalt | 87.9228 | 79.5656 | 98.2415 | 48.4281 | 806 | 207 | 838 | 15 | 15 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7428 | 78.4150 | 94.5813 | 55.1133 | 752 | 207 | 768 | 44 | 43 | 97.7273 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 75.6632 | 61.3084 | 98.7952 | 82.4710 | 328 | 207 | 328 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e0 | homalt | 79.4494 | 66.1211 | 99.5074 | 87.9739 | 404 | 207 | 404 | 2 | 1 | 50.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.8975 | 95.7372 | 96.0584 | 69.6019 | 4649 | 207 | 4606 | 189 | 80 | 42.3280 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 92.5726 | 90.3810 | 94.8730 | 43.3628 | 1945 | 207 | 1943 | 105 | 74 | 70.4762 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 85.3906 | 75.6471 | 98.0153 | 59.9388 | 643 | 207 | 642 | 13 | 11 | 84.6154 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 76.2512 | 62.2951 | 98.2659 | 87.5405 | 342 | 207 | 340 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.1277 | 91.4144 | 97.0070 | 58.8480 | 2204 | 207 | 2204 | 68 | 66 | 97.0588 | |
| jli-custom | SNP | tv | map_siren | * | 99.6133 | 99.5493 | 99.6773 | 55.0835 | 45723 | 207 | 45718 | 148 | 36 | 24.3243 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e0 | homalt | 98.9410 | 98.2306 | 99.6618 | 76.3825 | 11492 | 207 | 11492 | 39 | 26 | 66.6667 | |
| jpowers-varprowl | SNP | ti | HG002complexvar | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 207 | 0 | 0 | 0 | |||
| jpowers-varprowl | SNP | * | map_l150_m1_e0 | homalt | 98.9052 | 98.1726 | 99.6488 | 74.4202 | 11067 | 206 | 11067 | 39 | 26 | 66.6667 | |
| jpowers-varprowl | SNP | ti | map_siren | homalt | 99.6196 | 99.4567 | 99.7830 | 54.0684 | 37710 | 206 | 37711 | 82 | 57 | 69.5122 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7403 | 96.1234 | 99.4126 | 61.0480 | 5108 | 206 | 5077 | 30 | 17 | 56.6667 | |
| jli-custom | SNP | * | map_l250_m2_e0 | * | 98.2912 | 97.3874 | 99.2119 | 86.5904 | 7679 | 206 | 7679 | 61 | 30 | 49.1803 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.0884 | 96.5308 | 99.6971 | 74.3115 | 5732 | 206 | 5924 | 18 | 18 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9769 | 94.1577 | 99.9702 | 43.4270 | 3320 | 206 | 3360 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9769 | 94.1577 | 99.9702 | 43.4270 | 3320 | 206 | 3360 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.1732 | 94.9348 | 95.4128 | 68.8499 | 3861 | 206 | 3848 | 185 | 153 | 82.7027 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | * | 95.6014 | 97.4208 | 93.8488 | 91.4722 | 7781 | 206 | 7781 | 510 | 89 | 17.4510 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 206 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 25.0000 | 67.1429 | 0 | 206 | 23 | 69 | 23 | 33.3333 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 206 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 65.0593 | 53.4989 | 82.9932 | 36.5011 | 237 | 206 | 244 | 50 | 34 | 68.0000 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | * | 90.1401 | 85.6845 | 95.0845 | 97.7994 | 1233 | 206 | 1238 | 64 | 7 | 10.9375 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2719 | 98.8007 | 99.7476 | 56.4979 | 16971 | 206 | 16992 | 43 | 6 | 13.9535 | |
| raldana-dualsentieon | SNP | ti | map_l125_m2_e0 | het | 98.7385 | 98.9087 | 98.5689 | 73.7413 | 18670 | 206 | 18666 | 271 | 3 | 1.1070 | |
| raldana-dualsentieon | SNP | ti | map_l125_m2_e1 | het | 98.7395 | 98.9207 | 98.5590 | 73.8046 | 18881 | 206 | 18877 | 276 | 3 | 1.0870 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | het | 92.9455 | 91.2079 | 94.7505 | 82.9512 | 2137 | 206 | 2184 | 121 | 22 | 18.1818 | |
| 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 | |
| ciseli-custom | INDEL | * | map_l100_m0_e0 | homalt | 66.3988 | 59.5285 | 75.0617 | 86.5938 | 303 | 206 | 304 | 101 | 79 | 78.2178 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3740 | 98.0805 | 98.6692 | 39.1607 | 10526 | 206 | 10528 | 142 | 102 | 71.8310 | |
| ndellapenna-hhga | SNP | tv | map_l125_m2_e0 | het | 98.8271 | 98.0368 | 99.6302 | 69.6751 | 10237 | 205 | 10237 | 38 | 16 | 42.1053 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.9539 | 95.3891 | 85.1048 | 47.7198 | 4241 | 205 | 11210 | 1962 | 925 | 47.1458 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.1590 | 93.4295 | 99.0528 | 42.4608 | 2915 | 205 | 3451 | 33 | 31 | 93.9394 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.2667 | 91.9260 | 98.8593 | 33.2487 | 2334 | 205 | 2860 | 33 | 31 | 93.9394 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4506 | 98.8726 | 98.0323 | 41.8823 | 17978 | 205 | 17985 | 361 | 4 | 1.1080 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 86.4073 | 86.7056 | 86.1111 | 74.4351 | 1337 | 205 | 1364 | 220 | 118 | 53.6364 | |
| anovak-vg | INDEL | D6_15 | HG002complexvar | homalt | 78.9062 | 82.4636 | 75.6430 | 56.5846 | 964 | 205 | 1000 | 322 | 233 | 72.3602 | |
| bgallagher-sentieon | SNP | * | map_l150_m1_e0 | * | 99.1019 | 99.3303 | 98.8746 | 75.7599 | 30404 | 205 | 30398 | 346 | 61 | 17.6301 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.7925 | 91.4973 | 96.2058 | 58.9950 | 2206 | 205 | 2206 | 87 | 83 | 95.4023 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 66.2455 | 82.5976 | 55.2980 | 57.8918 | 973 | 205 | 1670 | 1350 | 1223 | 90.5926 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.2834 | 97.2128 | 97.3541 | 36.0909 | 7150 | 205 | 7175 | 195 | 109 | 55.8974 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8248 | 88.7486 | 99.5169 | 32.2699 | 1617 | 205 | 1648 | 8 | 8 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3895 | 94.9119 | 100.0000 | 26.2876 | 3824 | 205 | 3850 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.3785 | 86.4597 | 99.1673 | 87.8741 | 1309 | 205 | 1310 | 11 | 4 | 36.3636 | |
| ckim-vqsr | SNP | ti | segdup | homalt | 98.5954 | 97.2685 | 99.9589 | 88.0169 | 7300 | 205 | 7300 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9598 | 98.5931 | 99.3293 | 80.6409 | 14366 | 205 | 14366 | 97 | 14 | 14.4330 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9598 | 98.5931 | 99.3293 | 80.6409 | 14366 | 205 | 14366 | 97 | 14 | 14.4330 | |