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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60501-60550 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.5265 | 61.2613 | 85.9244 | 78.5005 | 408 | 258 | 409 | 67 | 27 | 40.2985 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.5265 | 61.2613 | 85.9244 | 78.5005 | 408 | 258 | 409 | 67 | 27 | 40.2985 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.2748 | 93.5927 | 70.2749 | 53.8827 | 409 | 28 | 409 | 173 | 173 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.1222 | 94.0230 | 98.3173 | 61.3742 | 409 | 26 | 409 | 7 | 4 | 57.1429 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e1 | het | 68.8482 | 53.2468 | 97.3810 | 81.0640 | 410 | 360 | 409 | 11 | 4 | 36.3636 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 75.9237 | 62.4049 | 96.9194 | 87.0711 | 410 | 247 | 409 | 13 | 4 | 30.7692 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m1_e0 | * | 72.3894 | 57.0432 | 99.0315 | 95.5984 | 409 | 308 | 409 | 4 | 1 | 25.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e1 | homalt | 79.4574 | 66.1290 | 99.5146 | 88.0476 | 410 | 210 | 410 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.4417 | 99.0385 | 97.8520 | 84.2540 | 206 | 2 | 410 | 9 | 8 | 88.8889 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | homalt | 80.2348 | 67.1031 | 99.7567 | 75.2260 | 410 | 201 | 410 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.8469 | 95.1945 | 98.5577 | 43.0137 | 416 | 21 | 410 | 6 | 6 | 100.0000 | |
| mlin-fermikit | SNP | tv | map_l250_m2_e1 | homalt | 50.9001 | 43.3404 | 61.6541 | 74.8392 | 410 | 536 | 410 | 255 | 239 | 93.7255 | |
| gduggal-snapvard | INDEL | D16_PLUS | * | het | 17.6734 | 11.3960 | 39.3474 | 71.0797 | 360 | 2799 | 410 | 632 | 372 | 58.8608 | |
| ghariani-varprowl | INDEL | * | func_cds | * | 91.6388 | 92.3596 | 90.9292 | 61.0680 | 411 | 34 | 411 | 41 | 30 | 73.1707 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 83.1109 | 76.3884 | 91.1308 | 38.7228 | 4154 | 1284 | 411 | 40 | 40 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 62.4864 | 45.7436 | 98.5612 | 50.3571 | 446 | 529 | 411 | 6 | 5 | 83.3333 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.2391 | 67.4470 | 96.0280 | 47.6132 | 605 | 292 | 411 | 17 | 16 | 94.1176 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 47.4248 | 37.3206 | 65.0316 | 30.6257 | 156 | 262 | 411 | 221 | 186 | 84.1629 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3668 | 97.7064 | 99.0361 | 85.6897 | 426 | 10 | 411 | 4 | 1 | 25.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7995 | 96.8208 | 98.7981 | 64.4748 | 335 | 11 | 411 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 86.7813 | 76.7925 | 99.7573 | 48.6284 | 407 | 123 | 411 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 57.4755 | 62.1622 | 53.4460 | 78.1472 | 414 | 252 | 411 | 358 | 355 | 99.1620 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 57.4755 | 62.1622 | 53.4460 | 78.1472 | 414 | 252 | 411 | 358 | 355 | 99.1620 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1556 | 98.3254 | 100.0000 | 44.6980 | 411 | 7 | 412 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.1800 | 56.8831 | 34.7973 | 40.5025 | 219 | 166 | 412 | 772 | 591 | 76.5544 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 30.4336 | 32.6586 | 28.4924 | 77.1672 | 242 | 499 | 412 | 1034 | 214 | 20.6963 | |
| gduggal-bwavard | INDEL | * | func_cds | * | 92.3991 | 93.2584 | 91.5556 | 46.3647 | 415 | 30 | 412 | 38 | 24 | 63.1579 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1576 | 98.5646 | 99.7579 | 44.6381 | 412 | 6 | 412 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.2797 | 99.2823 | 99.2771 | 46.2435 | 415 | 3 | 412 | 3 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.5630 | 93.3544 | 100.0000 | 65.8940 | 295 | 21 | 412 | 0 | 0 | ||
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 77.1048 | 63.8066 | 97.4057 | 47.3945 | 409 | 232 | 413 | 11 | 11 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | segdup | homalt | 93.4028 | 88.3721 | 99.0408 | 89.7341 | 418 | 55 | 413 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1608 | 99.0431 | 99.2788 | 45.5497 | 414 | 4 | 413 | 3 | 0 | 0.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 84.0047 | 86.8966 | 81.2992 | 66.0428 | 378 | 57 | 413 | 95 | 49 | 51.5789 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 88.2318 | 85.4772 | 91.1700 | 92.4108 | 412 | 70 | 413 | 40 | 4 | 10.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.2771 | 98.5646 | 100.0000 | 44.2645 | 412 | 6 | 413 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5192 | 99.0431 | 100.0000 | 47.9245 | 414 | 4 | 414 | 0 | 0 | ||
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.4727 | 79.6334 | 99.5192 | 27.2727 | 391 | 100 | 414 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 89.2190 | 94.9425 | 84.1463 | 67.3090 | 413 | 22 | 414 | 78 | 75 | 96.1538 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 82.2770 | 90.3226 | 75.5474 | 70.8511 | 476 | 51 | 414 | 134 | 133 | 99.2537 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5192 | 99.0431 | 100.0000 | 47.9899 | 414 | 4 | 414 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e0 | homalt | 94.7867 | 91.4835 | 98.3373 | 80.8636 | 333 | 31 | 414 | 7 | 7 | 100.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 41.1620 | 27.4615 | 82.1429 | 68.1214 | 410 | 1083 | 414 | 90 | 76 | 84.4444 | |
| gduggal-snapplat | INDEL | I1_5 | segdup | het | 74.8930 | 76.0223 | 73.7968 | 97.3622 | 409 | 129 | 414 | 147 | 3 | 2.0408 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | het | 79.8457 | 72.3776 | 89.0323 | 97.1314 | 414 | 158 | 414 | 51 | 14 | 27.4510 | |
| anovak-vg | INDEL | * | map_l150_m2_e0 | homalt | 76.2649 | 84.1996 | 69.6970 | 88.0938 | 405 | 76 | 414 | 180 | 160 | 88.8889 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 60.4770 | 91.1661 | 45.2459 | 46.8023 | 258 | 25 | 414 | 501 | 450 | 89.8204 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5192 | 99.0431 | 100.0000 | 47.9899 | 414 | 4 | 414 | 0 | 0 | ||
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7602 | 99.5215 | 100.0000 | 47.5348 | 416 | 2 | 415 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6399 | 99.2823 | 100.0000 | 45.1783 | 415 | 3 | 415 | 0 | 0 | ||