PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57901-57950 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | * | map_siren | hetalt | 96.8685 | 93.9271 | 100.0000 | 86.9855 | 232 | 15 | 234 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 90.1734 | 87.6404 | 92.8571 | 52.1822 | 234 | 33 | 234 | 18 | 13 | 72.2222 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 88.9582 | 95.4751 | 83.2740 | 92.7259 | 211 | 10 | 234 | 47 | 4 | 8.5106 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m0_e0 | het | 80.1370 | 67.8261 | 97.9079 | 90.6968 | 234 | 111 | 234 | 5 | 1 | 20.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.5228 | 98.3122 | 98.7342 | 24.0385 | 233 | 4 | 234 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l150_m0_e0 | homalt | 29.9616 | 17.6205 | 100.0000 | 94.7814 | 234 | 1094 | 234 | 0 | 0 | ||
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 90.5810 | 88.7218 | 92.5197 | 79.4165 | 236 | 30 | 235 | 19 | 7 | 36.8421 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l100_m1_e0 | * | 90.3034 | 89.5349 | 91.0853 | 85.3075 | 231 | 27 | 235 | 23 | 11 | 47.8261 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 41.5478 | 32.1377 | 58.7500 | 48.1865 | 224 | 473 | 235 | 165 | 147 | 89.0909 | |
| anovak-vg | INDEL | * | map_l125_m0_e0 | homalt | 73.9644 | 80.6338 | 68.3140 | 87.4544 | 229 | 55 | 235 | 109 | 101 | 92.6606 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.7062 | 96.6942 | 98.7395 | 67.2176 | 234 | 8 | 235 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.3631 | 98.7342 | 100.0000 | 24.9201 | 234 | 3 | 235 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.3631 | 98.7342 | 100.0000 | 23.4528 | 234 | 3 | 235 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 27.3019 | 16.0247 | 92.1569 | 56.7063 | 104 | 545 | 235 | 20 | 18 | 90.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 71.0493 | 66.1017 | 76.7974 | 70.5486 | 234 | 120 | 235 | 71 | 69 | 97.1831 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 61.1743 | 60.6771 | 61.6798 | 85.0530 | 233 | 151 | 235 | 146 | 135 | 92.4658 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0432 | 83.2653 | 73.4375 | 79.0713 | 408 | 82 | 235 | 85 | 83 | 97.6471 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 86.1694 | 89.8876 | 82.7465 | 54.2673 | 240 | 27 | 235 | 49 | 41 | 83.6735 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.7886 | 99.5781 | 100.0000 | 23.8710 | 236 | 1 | 236 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 23.6246 | 235 | 2 | 236 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.5386 | 97.5207 | 99.5781 | 86.9780 | 236 | 6 | 236 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1228 | 97.1074 | 99.1597 | 67.2627 | 235 | 7 | 236 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.5386 | 97.5207 | 99.5781 | 82.8261 | 236 | 6 | 236 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e0 | het | 63.7838 | 47.4849 | 97.1193 | 82.2238 | 236 | 261 | 236 | 7 | 4 | 57.1429 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m1_e0 | * | 61.2987 | 46.6403 | 89.3939 | 82.1138 | 236 | 270 | 236 | 28 | 25 | 89.2857 | |
| mlin-fermikit | INDEL | I6_15 | map_siren | * | 81.7172 | 75.7377 | 88.7218 | 80.5981 | 231 | 74 | 236 | 30 | 28 | 93.3333 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.5915 | 85.8696 | 93.6508 | 89.2994 | 237 | 39 | 236 | 16 | 7 | 43.7500 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 23.6246 | 235 | 2 | 236 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_siren | hetalt | 97.0971 | 94.7368 | 99.5781 | 87.1266 | 234 | 13 | 236 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 23.6246 | 235 | 2 | 236 | 0 | 0 | ||
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 82.8070 | 95.5800 | 0 | 0 | 236 | 49 | 46 | 93.8776 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m2_e0 | * | 90.3524 | 88.2576 | 92.5490 | 85.5524 | 233 | 31 | 236 | 19 | 11 | 57.8947 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 84.1893 | 75.7282 | 94.7791 | 94.2798 | 234 | 75 | 236 | 13 | 1 | 7.6923 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m2_e0 | homalt | 97.7165 | 97.1074 | 98.3333 | 91.6464 | 235 | 7 | 236 | 4 | 3 | 75.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 68.4689 | 57.9334 | 83.6879 | 54.1463 | 1026 | 745 | 236 | 46 | 44 | 95.6522 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 43.8001 | 29.2941 | 86.7647 | 51.6014 | 249 | 601 | 236 | 36 | 27 | 75.0000 | |
| gduggal-snapvard | INDEL | * | func_cds | het | 80.5822 | 87.3832 | 74.7634 | 51.0046 | 187 | 27 | 237 | 80 | 64 | 80.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.2160 | 51.7316 | 84.6429 | 72.1670 | 239 | 223 | 237 | 43 | 41 | 95.3488 | |
| gduggal-snapplat | INDEL | * | map_l250_m2_e0 | * | 76.4380 | 68.2779 | 86.8132 | 98.1240 | 226 | 105 | 237 | 36 | 5 | 13.8889 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.7724 | 88.0435 | 93.6759 | 87.8424 | 243 | 33 | 237 | 16 | 1 | 6.2500 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m0_e0 | homalt | 80.6497 | 68.7500 | 97.5309 | 82.4295 | 143 | 65 | 237 | 6 | 2 | 33.3333 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.9596 | 98.3471 | 99.5798 | 88.1000 | 238 | 4 | 237 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m2_e1 | homalt | 97.7471 | 96.3710 | 99.1632 | 86.0885 | 239 | 9 | 237 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.7500 | 97.9339 | 99.5798 | 88.4466 | 237 | 5 | 237 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.0490 | 51.5152 | 84.6429 | 72.1393 | 238 | 224 | 237 | 43 | 41 | 95.3488 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5763 | 99.1561 | 100.0000 | 24.0385 | 235 | 2 | 237 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 95.1807 | 91.8605 | 98.7500 | 85.1943 | 237 | 21 | 237 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1245 | 97.1074 | 99.1632 | 70.0501 | 235 | 7 | 237 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | * | map_l250_m2_e0 | * | 67.7533 | 69.7885 | 65.8333 | 96.4399 | 231 | 100 | 237 | 123 | 63 | 51.2195 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.7886 | 99.5781 | 100.0000 | 24.2812 | 236 | 1 | 237 | 0 | 0 | ||