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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68801-68850 / 86044 show all | |||||||||||||||
| 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 | * | map_l250_m1_e0 | homalt | 98.0829 | 96.5895 | 99.6231 | 89.3663 | 2379 | 84 | 2379 | 9 | 5 | 55.5556 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 88.5010 | 94.0928 | 83.5366 | 90.4222 | 1338 | 84 | 1370 | 270 | 90 | 33.3333 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.0939 | 98.2086 | 96.0042 | 48.3222 | 4605 | 84 | 4613 | 192 | 8 | 4.1667 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e1 | homalt | 96.3001 | 93.4426 | 99.3377 | 85.6787 | 1197 | 84 | 1200 | 8 | 3 | 37.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 54.9995 | 46.4968 | 67.3077 | 47.2081 | 73 | 84 | 70 | 34 | 26 | 76.4706 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4177 | 98.8728 | 97.9668 | 40.4008 | 7368 | 84 | 7372 | 153 | 3 | 1.9608 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 92.4081 | 90.2665 | 94.6537 | 88.7322 | 779 | 84 | 779 | 44 | 5 | 11.3636 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| gduggal-bwavard | SNP | * | map_l250_m0_e0 | * | 85.5739 | 96.0656 | 77.1483 | 94.8205 | 2051 | 84 | 2029 | 601 | 15 | 2.4958 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e0 | het | 97.4935 | 97.4186 | 97.5685 | 90.4134 | 3170 | 84 | 3170 | 79 | 22 | 27.8481 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e1 | het | 97.5129 | 97.4538 | 97.5721 | 90.4931 | 3215 | 84 | 3215 | 80 | 23 | 28.7500 | |
| gduggal-bwafb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.4793 | 99.5219 | 97.4583 | 69.5878 | 17484 | 84 | 17523 | 457 | 79 | 17.2867 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e0 | * | 97.4404 | 97.0854 | 97.7980 | 89.7481 | 2798 | 84 | 2798 | 63 | 14 | 22.2222 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e1 | * | 97.4535 | 97.1193 | 97.7901 | 89.8390 | 2832 | 84 | 2832 | 64 | 14 | 21.8750 | |
| gduggal-bwaplat | INDEL | D1_5 | segdup | * | 95.9962 | 92.3844 | 99.9019 | 96.4456 | 1019 | 84 | 1018 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.3814 | 92.1127 | 96.7647 | 63.8170 | 981 | 84 | 987 | 33 | 27 | 81.8182 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.3750 | 99.4887 | 95.3492 | 61.3437 | 16345 | 84 | 16381 | 799 | 639 | 79.9750 | |
| gduggal-bwavard | INDEL | I16_PLUS | HG002complexvar | homalt | 81.9370 | 72.8155 | 93.6709 | 46.7416 | 225 | 84 | 222 | 15 | 7 | 46.6667 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 54.2142 | 52.8090 | 55.6962 | 76.4881 | 94 | 84 | 88 | 70 | 43 | 61.4286 | |
| eyeh-varpipe | INDEL | I6_15 | HG002compoundhet | het | 24.7604 | 59.6154 | 15.6250 | 55.8621 | 124 | 84 | 70 | 378 | 375 | 99.2063 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 71.4286 | 59.8086 | 88.6525 | 84.5902 | 125 | 84 | 125 | 16 | 8 | 50.0000 | |
| eyeh-varpipe | SNP | * | map_l150_m1_e0 | het | 97.8416 | 99.5651 | 96.1767 | 79.2991 | 19232 | 84 | 18640 | 741 | 22 | 2.9690 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.1889 | 99.5294 | 94.9560 | 60.6805 | 17767 | 84 | 17150 | 911 | 86 | 9.4402 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 81.7107 | 93.5185 | 72.5504 | 85.4033 | 1212 | 84 | 1007 | 381 | 58 | 15.2231 | |
| eyeh-varpipe | SNP | ti | map_l125_m2_e0 | het | 98.9240 | 99.5550 | 98.3009 | 76.7289 | 18792 | 84 | 18398 | 318 | 15 | 4.7170 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.1147 | 86.7089 | 98.2394 | 38.2609 | 548 | 84 | 558 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | * | 96.4644 | 96.0133 | 96.9198 | 94.1307 | 2023 | 84 | 2769 | 88 | 62 | 70.4545 | |
| eyeh-varpipe | INDEL | * | segdup | hetalt | 51.6497 | 35.3846 | 95.5882 | 96.8649 | 46 | 84 | 65 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l100_m1_e0 | homalt | 99.7294 | 99.5323 | 99.9273 | 57.4153 | 17876 | 84 | 17876 | 13 | 11 | 84.6154 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.5570 | 79.7101 | 92.3295 | 70.6177 | 330 | 84 | 325 | 27 | 17 | 62.9630 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 81.7248 | 70.3180 | 97.5490 | 56.0345 | 199 | 84 | 199 | 5 | 5 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.3247 | 79.9043 | 96.2644 | 43.3225 | 334 | 84 | 335 | 13 | 7 | 53.8462 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.5815 | 94.1667 | 99.1234 | 62.7989 | 1356 | 84 | 1357 | 12 | 7 | 58.3333 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.9538 | 82.0896 | 99.4845 | 75.5359 | 385 | 84 | 386 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | * | 96.8133 | 96.2247 | 97.4091 | 91.7742 | 2141 | 84 | 2143 | 57 | 8 | 14.0351 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7577 | 99.3291 | 98.1927 | 66.2045 | 12437 | 84 | 12279 | 226 | 215 | 95.1327 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8105 | 99.6688 | 99.9525 | 54.4112 | 25275 | 84 | 25277 | 12 | 7 | 58.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3112 | 98.7493 | 99.8796 | 50.2546 | 6632 | 84 | 6634 | 8 | 2 | 25.0000 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | * | 99.0163 | 98.9347 | 99.0981 | 88.6629 | 7801 | 84 | 7801 | 71 | 9 | 12.6761 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 69.1382 | 53.0726 | 99.1525 | 27.6074 | 95 | 84 | 117 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m1_e0 | homalt | 99.1843 | 98.5666 | 99.8099 | 65.3618 | 5776 | 84 | 5776 | 11 | 7 | 63.6364 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | * | 92.3966 | 97.9875 | 87.4091 | 87.6580 | 4090 | 84 | 4089 | 589 | 40 | 6.7912 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1836 | 98.6234 | 99.7502 | 77.6187 | 6018 | 84 | 5989 | 15 | 7 | 46.6667 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 48.6065 | 77.8364 | 35.3365 | 53.6490 | 295 | 84 | 294 | 538 | 460 | 85.5019 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 1.1765 | 0.0000 | 0.0000 | 1 | 84 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 44.9704 | 31.1475 | 80.8511 | 62.9921 | 38 | 84 | 38 | 9 | 6 | 66.6667 | |
| ckim-dragen | INDEL | I6_15 | HG002complexvar | hetalt | 96.4437 | 93.1316 | 100.0000 | 55.3409 | 1139 | 84 | 1179 | 0 | 0 | ||
| ckim-dragen | SNP | ti | map_l125_m2_e0 | homalt | 99.5541 | 99.2604 | 99.8495 | 63.2256 | 11274 | 84 | 11279 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | ti | map_l125_m2_e1 | homalt | 99.5580 | 99.2669 | 99.8508 | 63.2612 | 11374 | 84 | 11379 | 17 | 16 | 94.1176 | |