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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7351-7400 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | map_l150_m2_e1 | homalt | 88.0784 | 79.1748 | 99.2382 | 72.9549 | 9364 | 2463 | 9249 | 71 | 59 | 83.0986 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9905 | 98.3405 | 99.6492 | 44.7855 | 9363 | 158 | 9375 | 33 | 31 | 93.9394 | |
| astatham-gatk | SNP | ti | map_l150_m1_e0 | het | 85.9873 | 75.6508 | 99.5954 | 82.9552 | 9358 | 3012 | 9354 | 38 | 18 | 47.3684 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0763 | 92.8919 | 95.2913 | 68.9761 | 9357 | 716 | 9208 | 455 | 419 | 92.0879 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0726 | 96.5229 | 95.6265 | 68.5165 | 9355 | 337 | 9380 | 429 | 282 | 65.7343 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.6648 | 84.2067 | 75.5878 | 57.5613 | 9352 | 1754 | 9484 | 3063 | 1008 | 32.9089 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 75.3642 | 66.6334 | 86.7280 | 50.6405 | 9350 | 4682 | 2640 | 404 | 232 | 57.4257 | |
| gduggal-snapvard | INDEL | * | * | hetalt | 0.0000 | 37.0438 | 0.0000 | 0.0000 | 9348 | 15887 | 0 | 0 | 0 | ||
| qzeng-custom | INDEL | I1_5 | HG002compoundhet | * | 82.4804 | 75.6151 | 90.7168 | 64.6037 | 9343 | 3013 | 9391 | 961 | 822 | 85.5359 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.4596 | 98.1094 | 87.4251 | 55.1844 | 9341 | 180 | 9337 | 1343 | 1337 | 99.5532 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 80.3927 | 81.2870 | 79.5178 | 59.9939 | 9335 | 2149 | 9333 | 2404 | 2119 | 88.1448 | |
| ckim-gatk | SNP | ti | map_l150_m1_e0 | het | 84.9286 | 75.4406 | 97.1464 | 89.3093 | 9332 | 3038 | 9328 | 274 | 32 | 11.6788 | |
| gduggal-snapvard | INDEL | * | HG002compoundhet | hetalt | 0.0000 | 37.0482 | 0.0000 | 0.0000 | 9328 | 15850 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l125_m2_e0 | homalt | 89.9353 | 82.1183 | 99.3971 | 67.3107 | 9327 | 2031 | 9233 | 56 | 51 | 91.0714 | |
| jlack-gatk | INDEL | D1_5 | * | hetalt | 95.0041 | 90.9322 | 99.4577 | 62.5612 | 9316 | 929 | 9354 | 51 | 46 | 90.1961 | |
| jmaeng-gatk | SNP | ti | map_l150_m1_e0 | het | 84.7465 | 75.2789 | 96.9381 | 89.5763 | 9312 | 3058 | 9308 | 294 | 33 | 11.2245 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.8573 | 92.4054 | 93.3136 | 74.7428 | 9308 | 765 | 9462 | 678 | 457 | 67.4041 | |
| egarrison-hhga | SNP | ti | HG002compoundhet | het | 98.7211 | 97.8643 | 99.5931 | 37.6968 | 9302 | 203 | 9300 | 38 | 21 | 55.2632 | |
| mlin-fermikit | INDEL | I6_15 | * | het | 88.6098 | 92.6243 | 84.9289 | 50.1273 | 9293 | 740 | 9315 | 1653 | 1640 | 99.2136 | |
| jlack-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 95.0540 | 90.9554 | 99.5394 | 57.6003 | 9292 | 924 | 9293 | 43 | 40 | 93.0233 | |
| qzeng-custom | SNP | ti | HG002compoundhet | het | 98.0838 | 97.7380 | 98.4320 | 42.6883 | 9290 | 215 | 11739 | 187 | 45 | 24.0642 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | homalt | 99.8549 | 99.8602 | 99.8495 | 64.9261 | 9289 | 13 | 9289 | 14 | 5 | 35.7143 | |
| hfeng-pmm1 | SNP | tv | map_l100_m2_e1 | homalt | 99.8549 | 99.8495 | 99.8602 | 64.8422 | 9288 | 14 | 9288 | 13 | 5 | 38.4615 | |
| eyeh-varpipe | SNP | tv | map_l100_m2_e1 | homalt | 99.8487 | 99.8280 | 99.8695 | 67.1866 | 9286 | 16 | 9182 | 12 | 4 | 33.3333 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e1 | homalt | 99.8333 | 99.8065 | 99.8602 | 64.7574 | 9284 | 18 | 9284 | 13 | 5 | 38.4615 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.4151 | 97.5003 | 99.3472 | 47.2567 | 9283 | 238 | 9283 | 61 | 57 | 93.4426 | |
| astatham-gatk | SNP | ti | HG002compoundhet | het | 98.7553 | 97.6644 | 99.8709 | 39.9910 | 9283 | 222 | 9281 | 12 | 11 | 91.6667 | |
| ckim-vqsr | SNP | tv | map_siren | homalt | 69.9947 | 53.8399 | 100.0000 | 68.1997 | 9282 | 7958 | 9279 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | map_l100_m2_e1 | homalt | 99.8548 | 99.7850 | 99.9246 | 63.4100 | 9282 | 20 | 9281 | 7 | 4 | 57.1429 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5033 | 98.1180 | 98.8917 | 42.6441 | 9280 | 178 | 9280 | 104 | 101 | 97.1154 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e1 | homalt | 99.8494 | 99.7635 | 99.9354 | 60.9109 | 9280 | 22 | 9280 | 6 | 3 | 50.0000 | |
| egarrison-hhga | SNP | tv | map_l100_m2_e1 | homalt | 99.8332 | 99.7312 | 99.9354 | 64.6456 | 9277 | 25 | 9277 | 6 | 5 | 83.3333 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m2_e1 | homalt | 99.8278 | 99.7097 | 99.9461 | 61.3020 | 9275 | 27 | 9274 | 5 | 3 | 60.0000 | |
| gduggal-bwaplat | SNP | tv | map_l125_m1_e0 | * | 73.1779 | 57.8921 | 99.4316 | 88.1943 | 9272 | 6744 | 9272 | 53 | 13 | 24.5283 | |
| bgallagher-sentieon | SNP | tv | map_l100_m2_e1 | homalt | 99.7847 | 99.6667 | 99.9030 | 61.6624 | 9271 | 31 | 9271 | 9 | 6 | 66.6667 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5176 | 97.3637 | 99.6992 | 42.0335 | 9270 | 251 | 9282 | 28 | 26 | 92.8571 | |
| jli-custom | SNP | tv | map_l100_m2_e1 | homalt | 99.7847 | 99.6345 | 99.9353 | 60.9647 | 9268 | 34 | 9268 | 6 | 5 | 83.3333 | |
| anovak-vg | SNP | tv | map_l125_m1_e0 | het | 77.0260 | 91.5169 | 66.4968 | 76.6933 | 9267 | 859 | 9265 | 4668 | 1021 | 21.8723 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | homalt | 99.7631 | 99.6130 | 99.9137 | 63.7862 | 9266 | 36 | 9266 | 8 | 6 | 75.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 91.4324 | 84.8960 | 99.0592 | 66.8074 | 9263 | 1648 | 9266 | 88 | 18 | 20.4545 | |
| ckim-dragen | SNP | tv | map_l100_m2_e1 | homalt | 99.6770 | 99.5162 | 99.8382 | 60.2316 | 9257 | 45 | 9257 | 15 | 13 | 86.6667 | |
| astatham-gatk | SNP | tv | map_l150_m1_e0 | * | 91.6254 | 84.8240 | 99.6125 | 79.0350 | 9256 | 1656 | 9254 | 36 | 13 | 36.1111 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9622 | 97.8431 | 98.0816 | 45.4687 | 9254 | 204 | 9254 | 181 | 176 | 97.2376 | |
| anovak-vg | SNP | * | map_l150_m2_e0 | homalt | 88.0238 | 79.0922 | 99.2294 | 72.9596 | 9253 | 2446 | 9143 | 71 | 59 | 83.0986 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 91.6186 | 84.8043 | 99.6235 | 66.5948 | 9253 | 1658 | 9262 | 35 | 13 | 37.1429 | |
| dgrover-gatk | SNP | tv | map_l100_m2_e1 | homalt | 99.6821 | 99.4517 | 99.9136 | 62.0828 | 9251 | 51 | 9251 | 8 | 5 | 62.5000 | |
| gduggal-snapvard | INDEL | D1_5 | HG002complexvar | homalt | 91.8287 | 87.2523 | 96.9117 | 42.9901 | 9247 | 1351 | 9320 | 297 | 279 | 93.9394 | |
| gduggal-snapfb | SNP | ti | HG002compoundhet | het | 78.4798 | 97.2856 | 65.7667 | 46.9249 | 9247 | 258 | 9427 | 4907 | 174 | 3.5460 | |
| ltrigg-rtg1 | SNP | ti | HG002compoundhet | het | 98.5032 | 97.2856 | 99.7516 | 37.6347 | 9247 | 258 | 9237 | 23 | 5 | 21.7391 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8931 | 97.7585 | 98.0280 | 45.2710 | 9246 | 212 | 9246 | 186 | 181 | 97.3118 | |