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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21851-21900 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | tv | segdup | * | 97.0429 | 99.8476 | 94.3914 | 91.6933 | 8519 | 13 | 8398 | 499 | 11 | 2.2044 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m2_e0 | het | 97.0429 | 98.0892 | 96.0187 | 86.4645 | 1232 | 24 | 1230 | 51 | 4 | 7.8431 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0426 | 94.5944 | 99.6209 | 40.6185 | 15802 | 903 | 16029 | 61 | 60 | 98.3607 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0426 | 94.5944 | 99.6209 | 40.6185 | 15802 | 903 | 16029 | 61 | 60 | 98.3607 | |
| rpoplin-dv42 | INDEL | * | map_l100_m0_e0 | het | 97.0417 | 96.2782 | 97.8175 | 85.4440 | 983 | 38 | 986 | 22 | 6 | 27.2727 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0416 | 94.2633 | 99.9886 | 32.8733 | 8758 | 533 | 8802 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0416 | 94.2633 | 99.9886 | 32.8733 | 8758 | 533 | 8802 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m0_e0 | * | 97.0408 | 97.9239 | 96.1735 | 91.2206 | 283 | 6 | 377 | 15 | 8 | 53.3333 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m2_e1 | * | 97.0398 | 98.4934 | 95.6284 | 92.9688 | 523 | 8 | 525 | 24 | 3 | 12.5000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0392 | 94.3279 | 99.9110 | 42.3116 | 3326 | 200 | 3366 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0392 | 94.3279 | 99.9110 | 42.3116 | 3326 | 200 | 3366 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | * | homalt | 97.0392 | 99.0223 | 95.1340 | 55.6784 | 6178 | 61 | 6178 | 316 | 307 | 97.1519 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.0388 | 96.6321 | 97.4490 | 90.6108 | 373 | 13 | 382 | 10 | 2 | 20.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0384 | 94.9067 | 99.2681 | 58.6918 | 6000 | 322 | 5968 | 44 | 25 | 56.8182 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0384 | 94.9067 | 99.2681 | 58.6918 | 6000 | 322 | 5968 | 44 | 25 | 56.8182 | |
| eyeh-varpipe | INDEL | D1_5 | map_l250_m2_e1 | * | 97.0374 | 97.8378 | 96.2500 | 95.1120 | 181 | 4 | 231 | 9 | 4 | 44.4444 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0372 | 96.1312 | 97.9605 | 45.4439 | 14213 | 572 | 15466 | 322 | 303 | 94.0994 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e1 | het | 97.0370 | 97.0370 | 97.0370 | 86.7257 | 131 | 4 | 131 | 4 | 1 | 25.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.0365 | 94.6613 | 99.5340 | 28.2145 | 6791 | 383 | 6835 | 32 | 30 | 93.7500 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.0354 | 97.2932 | 96.7790 | 40.3219 | 1294 | 36 | 1292 | 43 | 35 | 81.3953 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e0 | * | 97.0354 | 97.4628 | 96.6116 | 88.3585 | 1114 | 29 | 1112 | 39 | 5 | 12.8205 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.0353 | 98.9576 | 95.1862 | 61.9773 | 2658 | 28 | 2709 | 137 | 1 | 0.7299 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.0351 | 96.4286 | 97.6493 | 76.4347 | 2079 | 77 | 2077 | 50 | 29 | 58.0000 | |
| jli-custom | INDEL | D1_5 | map_l250_m2_e1 | * | 97.0350 | 97.2973 | 96.7742 | 95.1360 | 180 | 5 | 180 | 6 | 1 | 16.6667 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0337 | 96.0444 | 98.0437 | 49.4938 | 16972 | 699 | 18343 | 366 | 341 | 93.1694 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0337 | 96.0444 | 98.0437 | 49.4938 | 16972 | 699 | 18343 | 366 | 341 | 93.1694 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0336 | 96.1684 | 97.9144 | 65.7408 | 15461 | 616 | 15446 | 329 | 175 | 53.1915 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0336 | 96.1684 | 97.9144 | 65.7408 | 15461 | 616 | 15446 | 329 | 175 | 53.1915 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m0_e0 | het | 97.0335 | 94.7826 | 99.3939 | 76.8908 | 327 | 18 | 328 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0321 | 95.0607 | 99.0869 | 48.8550 | 5639 | 293 | 5643 | 52 | 49 | 94.2308 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | * | 97.0316 | 96.1110 | 97.9699 | 70.7650 | 6129 | 248 | 6129 | 127 | 100 | 78.7402 | |
| gduggal-bwafb | SNP | * | map_l250_m1_e0 | het | 97.0310 | 96.9085 | 97.1537 | 89.8249 | 4608 | 147 | 4608 | 135 | 33 | 24.4444 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.0297 | 94.2308 | 100.0000 | 57.9832 | 49 | 3 | 50 | 0 | 0 | ||
| jlack-gatk | INDEL | D1_5 | segdup | hetalt | 97.0297 | 94.2308 | 100.0000 | 95.7018 | 49 | 3 | 49 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.0297 | 94.2308 | 100.0000 | 59.6774 | 49 | 3 | 50 | 0 | 0 | ||
| eyeh-varpipe | INDEL | C6_15 | * | het | 97.0297 | 100.0000 | 94.2308 | 93.5108 | 7 | 0 | 147 | 9 | 5 | 55.5556 | |
| gduggal-bwavard | SNP | * | map_siren | * | 97.0294 | 96.9773 | 97.0815 | 65.0881 | 141808 | 4420 | 139841 | 4204 | 408 | 9.7050 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0284 | 97.0399 | 97.0169 | 59.6380 | 31045 | 947 | 33661 | 1035 | 709 | 68.5024 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | het | 97.0283 | 97.4260 | 96.6338 | 80.2465 | 757 | 20 | 1177 | 41 | 27 | 65.8537 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.0280 | 94.8346 | 99.3253 | 40.5686 | 6334 | 345 | 11482 | 78 | 47 | 60.2564 | |
| rpoplin-dv42 | SNP | tv | map_l250_m0_e0 | het | 97.0280 | 97.0280 | 97.0280 | 91.3647 | 555 | 17 | 555 | 17 | 12 | 70.5882 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.0273 | 96.1538 | 97.9167 | 85.1852 | 50 | 2 | 47 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | * | homalt | 97.0258 | 99.8718 | 94.3376 | 54.5892 | 6231 | 8 | 6231 | 374 | 371 | 99.1979 | |
| bgallagher-sentieon | SNP | tv | map_l250_m0_e0 | * | 97.0246 | 98.0392 | 96.0307 | 93.0983 | 750 | 15 | 750 | 31 | 5 | 16.1290 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0246 | 94.5657 | 99.6148 | 24.0847 | 6456 | 371 | 6465 | 25 | 25 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.0242 | 95.4545 | 98.6464 | 64.6742 | 588 | 28 | 583 | 8 | 8 | 100.0000 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | * | 97.0238 | 99.1147 | 95.0193 | 74.0812 | 71762 | 641 | 71751 | 3761 | 290 | 7.7107 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l150_m1_e0 | * | 97.0226 | 96.4427 | 97.6096 | 87.2589 | 488 | 18 | 490 | 12 | 1 | 8.3333 | |