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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24251-24300 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.3876 | 92.5373 | 98.4190 | 58.7276 | 496 | 40 | 498 | 8 | 6 | 75.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m2_e1 | het | 98.5163 | 98.0315 | 99.0060 | 87.2108 | 498 | 10 | 498 | 5 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l150_m1_e0 | * | 98.6139 | 98.4190 | 98.8095 | 88.8938 | 498 | 8 | 498 | 6 | 1 | 16.6667 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9116 | 99.2110 | 98.6139 | 86.9408 | 503 | 4 | 498 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.1167 | 92.6829 | 75.3404 | 62.6343 | 152 | 12 | 498 | 163 | 50 | 30.6748 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 55.2529 | 51.8248 | 59.1667 | 72.9556 | 497 | 462 | 497 | 343 | 309 | 90.0875 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 91.7821 | 85.1027 | 99.5992 | 26.0741 | 497 | 87 | 497 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 91.0987 | 84.2196 | 99.2016 | 58.5608 | 491 | 92 | 497 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 96.8719 | 95.3757 | 98.4158 | 90.8249 | 495 | 24 | 497 | 8 | 2 | 25.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1777 | 91.1321 | 99.5992 | 56.5331 | 483 | 47 | 497 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m2_e1 | het | 93.7736 | 95.2107 | 92.3792 | 90.5348 | 497 | 25 | 497 | 41 | 21 | 51.2195 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | het | 94.6619 | 95.0192 | 94.3074 | 93.7699 | 496 | 26 | 497 | 30 | 3 | 10.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l150_m2_e0 | * | 96.5943 | 95.5684 | 97.6424 | 93.2903 | 496 | 23 | 497 | 12 | 2 | 16.6667 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 52.0287 | 92.5996 | 36.1780 | 66.6261 | 488 | 39 | 496 | 875 | 863 | 98.6286 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.4541 | 77.3273 | 98.0237 | 68.7461 | 515 | 151 | 496 | 10 | 2 | 20.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.4541 | 77.3273 | 98.0237 | 68.7461 | 515 | 151 | 496 | 10 | 2 | 20.0000 | |
| ndellapenna-hhga | INDEL | * | map_l150_m0_e0 | * | 96.5844 | 96.1089 | 97.0646 | 99.2093 | 494 | 20 | 496 | 15 | 5 | 33.3333 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m2_e0 | het | 97.5340 | 96.1089 | 99.0020 | 86.1869 | 494 | 20 | 496 | 5 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e0 | * | 96.2251 | 95.9538 | 96.4981 | 89.5528 | 498 | 21 | 496 | 18 | 3 | 16.6667 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e0 | * | 93.8505 | 95.5684 | 92.1933 | 92.5267 | 496 | 23 | 496 | 42 | 11 | 26.1905 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e0 | * | 95.3887 | 95.7611 | 95.0192 | 91.2077 | 497 | 22 | 496 | 26 | 7 | 26.9231 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.1847 | 95.8015 | 98.6083 | 75.1972 | 502 | 22 | 496 | 7 | 4 | 57.1429 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m0_e0 | homalt | 98.5147 | 97.8389 | 99.2000 | 76.5368 | 498 | 11 | 496 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l150_m1_e0 | * | 98.2131 | 97.6285 | 98.8048 | 88.8071 | 494 | 12 | 496 | 6 | 2 | 33.3333 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m2_e1 | het | 97.5364 | 97.2441 | 97.8304 | 85.6618 | 494 | 14 | 496 | 11 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m2_e1 | het | 95.2826 | 94.6360 | 95.9381 | 90.5225 | 494 | 28 | 496 | 21 | 3 | 14.2857 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | homalt | 67.3385 | 92.8571 | 52.8222 | 77.1699 | 481 | 37 | 496 | 443 | 416 | 93.9052 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 31.9699 | 22.4138 | 55.7303 | 40.4682 | 104 | 360 | 496 | 394 | 328 | 83.2487 | |
| bgallagher-sentieon | INDEL | D6_15 | map_siren | * | 97.5395 | 97.4460 | 97.6331 | 85.2014 | 496 | 13 | 495 | 12 | 2 | 16.6667 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.5522 | 92.4908 | 79.5820 | 75.9660 | 505 | 41 | 495 | 127 | 74 | 58.2677 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 74.3243 | 87.7660 | 64.4531 | 60.5344 | 495 | 69 | 495 | 273 | 223 | 81.6850 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.1923 | 92.5234 | 98.0198 | 73.2238 | 495 | 40 | 495 | 10 | 10 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m0_e0 | * | 68.2636 | 57.4739 | 84.0407 | 76.2404 | 496 | 367 | 495 | 94 | 78 | 82.9787 | |
| dgrover-gatk | INDEL | D6_15 | map_siren | * | 97.7320 | 97.4460 | 98.0198 | 85.5879 | 496 | 13 | 495 | 10 | 2 | 20.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 80.6406 | 68.2128 | 98.6056 | 59.6463 | 500 | 233 | 495 | 7 | 6 | 85.7143 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 77.2317 | 63.6364 | 98.2143 | 47.5546 | 210 | 120 | 495 | 9 | 6 | 66.6667 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m2_e0 | * | 96.7742 | 95.3757 | 98.2143 | 89.7789 | 495 | 24 | 495 | 9 | 2 | 22.2222 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.7203 | 94.2529 | 95.1923 | 81.7287 | 574 | 35 | 495 | 25 | 17 | 68.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m1_e0 | * | 98.0147 | 97.4308 | 98.6056 | 88.2104 | 493 | 13 | 495 | 7 | 2 | 28.5714 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 64.9197 | 98.0276 | 48.5294 | 92.7910 | 497 | 10 | 495 | 525 | 34 | 6.4762 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 31.2372 | 20.6053 | 64.5372 | 76.8976 | 497 | 1915 | 495 | 272 | 252 | 92.6471 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 67.2635 | 54.0570 | 89.0090 | 75.3662 | 493 | 419 | 494 | 61 | 58 | 95.0820 | |
| eyeh-varpipe | SNP | ti | map_siren | hetalt | 98.7189 | 98.2456 | 99.1968 | 68.8944 | 56 | 1 | 494 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m0_e0 | het | 92.6096 | 86.5385 | 99.5968 | 76.3020 | 495 | 77 | 494 | 2 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6028 | 97.4359 | 99.7980 | 86.4421 | 494 | 13 | 494 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m1_e0 | * | 74.0933 | 68.7587 | 80.3252 | 92.6268 | 493 | 224 | 494 | 121 | 55 | 45.4545 | |
| cchapple-custom | INDEL | D6_15 | map_siren | * | 94.5230 | 93.5167 | 95.5513 | 80.9225 | 476 | 33 | 494 | 23 | 10 | 43.4783 | |
| ckim-gatk | INDEL | D6_15 | map_siren | * | 97.2468 | 97.2495 | 97.2441 | 86.7501 | 495 | 14 | 494 | 14 | 2 | 14.2857 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.9922 | 92.1495 | 98.0159 | 72.8155 | 493 | 42 | 494 | 10 | 10 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 67.3943 | 54.1667 | 89.1697 | 75.4215 | 494 | 418 | 494 | 60 | 57 | 95.0000 | |