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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14251-14300 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | map_l125_m2_e0 | homalt | 83.3237 | 71.7644 | 99.3217 | 66.9963 | 8151 | 3207 | 8054 | 55 | 54 | 98.1818 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 86.1163 | 83.9286 | 88.4211 | 59.0164 | 141 | 27 | 420 | 55 | 20 | 36.3636 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.6585 | 93.5681 | 91.7665 | 71.7189 | 611 | 42 | 613 | 55 | 44 | 80.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0218 | 97.3951 | 98.6566 | 81.2038 | 4038 | 108 | 4039 | 55 | 32 | 58.1818 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 71.4933 | 61.7706 | 84.8485 | 75.6702 | 307 | 190 | 308 | 55 | 54 | 98.1818 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 86.4488 | 81.0811 | 92.5776 | 87.3872 | 690 | 161 | 686 | 55 | 9 | 16.3636 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6377 | 99.1766 | 96.1458 | 58.9707 | 1325 | 11 | 1372 | 55 | 1 | 1.8182 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.4353 | 98.9474 | 94.0476 | 61.8340 | 846 | 9 | 869 | 55 | 1 | 1.8182 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | het | 98.7963 | 97.9633 | 99.6436 | 50.7412 | 15103 | 314 | 15098 | 54 | 2 | 3.7037 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 77.1546 | 63.0485 | 99.3919 | 33.0569 | 8678 | 5086 | 8826 | 54 | 53 | 98.1481 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 96.5184 | 0 | 0 | 0 | 54 | 0 | 0.0000 | ||
| qzeng-custom | SNP | * | func_cds | * | 99.7598 | 99.8182 | 99.7016 | 28.7413 | 18117 | 33 | 18040 | 54 | 4 | 7.4074 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 74.4043 | 72.9730 | 75.8929 | 83.4686 | 162 | 60 | 170 | 54 | 48 | 88.8889 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 81.9603 | 79.1667 | 84.9582 | 78.0562 | 304 | 80 | 305 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 80.1325 | 95.2756 | 69.1429 | 50.8427 | 121 | 6 | 121 | 54 | 40 | 74.0741 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.2239 | 74.1883 | 89.7338 | 67.9659 | 457 | 159 | 472 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | D6_15 | * | hetalt | 65.7378 | 49.3394 | 98.4629 | 43.6387 | 4033 | 4141 | 3459 | 54 | 41 | 75.9259 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002complexvar | * | 92.7599 | 90.0688 | 95.6169 | 66.4762 | 1179 | 130 | 1178 | 54 | 28 | 51.8519 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.3568 | 80.3493 | 91.0299 | 77.5037 | 552 | 135 | 548 | 54 | 32 | 59.2593 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | * | homalt | 94.2470 | 92.2486 | 96.3340 | 45.0988 | 1440 | 121 | 1419 | 54 | 53 | 98.1481 | |
| ltrigg-rtg2 | SNP | * | map_l125_m1_e0 | het | 98.5086 | 97.2457 | 99.8048 | 55.1586 | 27610 | 782 | 27610 | 54 | 6 | 11.1111 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | het | 85.2572 | 76.0650 | 96.9765 | 74.1833 | 1732 | 545 | 1732 | 54 | 36 | 66.6667 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 73.5160 | 59.0220 | 97.4456 | 46.9644 | 2257 | 1567 | 2060 | 54 | 42 | 77.7778 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.2222 | 98.4038 | 98.0413 | 45.0797 | 1048 | 17 | 2703 | 54 | 37 | 68.5185 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.9933 | 91.3832 | 96.7568 | 85.7571 | 1612 | 152 | 1611 | 54 | 24 | 44.4444 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 79.3893 | 0 | 0 | 0 | 54 | 1 | 1.8519 | ||
| gduggal-snapfb | SNP | ti | map_siren | homalt | 99.1394 | 98.4334 | 99.8555 | 57.8682 | 37322 | 594 | 37322 | 54 | 29 | 53.7037 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 79.3893 | 0 | 0 | 0 | 54 | 1 | 1.8519 | ||
| gduggal-snapfb | INDEL | D1_5 | map_l125_m1_e0 | * | 95.8482 | 96.5993 | 95.1087 | 86.1498 | 1051 | 37 | 1050 | 54 | 9 | 16.6667 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e0 | * | 96.0014 | 96.6754 | 95.3368 | 86.9241 | 1105 | 38 | 1104 | 54 | 9 | 16.6667 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 65.6529 | 54.9051 | 81.6327 | 49.3103 | 347 | 285 | 240 | 54 | 29 | 53.7037 | |
| gduggal-snapfb | INDEL | I1_5 | segdup | het | 93.6061 | 96.2825 | 91.0744 | 94.8537 | 518 | 20 | 551 | 54 | 10 | 18.5185 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.5107 | 95.4217 | 93.6170 | 89.0315 | 792 | 38 | 792 | 54 | 19 | 35.1852 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e1 | het | 94.0622 | 98.2283 | 90.2351 | 92.3365 | 499 | 9 | 499 | 54 | 18 | 33.3333 | |
| ghariani-varprowl | SNP | tv | func_cds | * | 99.2142 | 99.6568 | 98.7755 | 38.2266 | 4356 | 15 | 4356 | 54 | 5 | 9.2593 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m2_e0 | * | 71.5037 | 71.4286 | 71.5789 | 85.3395 | 90 | 36 | 136 | 54 | 37 | 68.5185 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | homalt | 98.0408 | 96.3523 | 99.7895 | 60.4906 | 26018 | 985 | 25605 | 54 | 41 | 75.9259 | |
| gduggal-bwafb | INDEL | D6_15 | HG002complexvar | het | 93.9461 | 89.7756 | 98.5230 | 50.1907 | 2801 | 319 | 3602 | 54 | 30 | 55.5556 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.4286 | 91.2173 | 91.6409 | 57.2469 | 592 | 57 | 592 | 54 | 52 | 96.2963 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.6326 | 78.2787 | 89.7727 | 73.4807 | 382 | 106 | 474 | 54 | 50 | 92.5926 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1862 | 98.9111 | 99.4628 | 53.1375 | 9992 | 110 | 9998 | 54 | 37 | 68.5185 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 55.9006 | 50.5618 | 62.5000 | 73.6264 | 90 | 88 | 90 | 54 | 51 | 94.4444 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 70.1923 | 90.1235 | 57.4803 | 74.8016 | 73 | 8 | 73 | 54 | 51 | 94.4444 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.1162 | 97.6582 | 96.5801 | 61.6655 | 1543 | 37 | 1525 | 54 | 6 | 11.1111 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 73.3639 | 62.2101 | 89.3910 | 71.1778 | 456 | 277 | 455 | 54 | 30 | 55.5556 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 62.7586 | 94.9565 | 0 | 0 | 91 | 54 | 38 | 70.3704 | |
| eyeh-varpipe | INDEL | D6_15 | map_siren | homalt | 78.3526 | 87.6923 | 70.8108 | 81.7374 | 114 | 16 | 131 | 54 | 40 | 74.0741 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | homalt | 87.5361 | 80.5253 | 95.8841 | 57.8947 | 1257 | 304 | 1258 | 54 | 51 | 94.4444 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 68.2353 | 100.0000 | 51.7857 | 95.9288 | 1 | 0 | 58 | 54 | 18 | 33.3333 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e0 | * | 60.9821 | 43.8984 | 99.8339 | 85.3165 | 32469 | 41495 | 32463 | 54 | 14 | 25.9259 | |