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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43751-43800 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | * | map_l100_m1_e0 | hetalt | 75.4294 | 62.0968 | 96.0526 | 85.1852 | 77 | 47 | 73 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 75.4333 | 60.8225 | 99.2832 | 50.1786 | 281 | 181 | 277 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l250_m2_e0 | homalt | 75.4386 | 71.6667 | 79.6296 | 95.8365 | 43 | 17 | 43 | 11 | 8 | 72.7273 | |
| ciseli-custom | INDEL | D1_5 | map_l250_m2_e1 | homalt | 75.4386 | 71.6667 | 79.6296 | 95.9276 | 43 | 17 | 43 | 11 | 8 | 72.7273 | |
| mlin-fermikit | SNP | ti | map_l100_m2_e0 | homalt | 75.4463 | 68.6657 | 83.7129 | 51.9470 | 12572 | 5737 | 12572 | 2446 | 2353 | 96.1979 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 75.4466 | 61.5819 | 97.3684 | 83.1111 | 109 | 68 | 111 | 3 | 1 | 33.3333 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.4470 | 65.9048 | 88.2202 | 66.0139 | 692 | 358 | 689 | 92 | 70 | 76.0870 | |
| qzeng-custom | INDEL | I1_5 | map_l250_m2_e1 | het | 75.4491 | 63.6364 | 92.6471 | 98.4019 | 42 | 24 | 63 | 5 | 4 | 80.0000 | |
| ckim-gatk | SNP | tv | map_l125_m0_e0 | * | 75.4506 | 61.8308 | 96.7658 | 90.3686 | 4100 | 2531 | 4099 | 137 | 8 | 5.8394 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.4508 | 62.9630 | 94.1176 | 80.2326 | 17 | 10 | 16 | 1 | 0 | 0.0000 | |
| anovak-vg | INDEL | D6_15 | map_l100_m0_e0 | * | 75.4516 | 68.9320 | 83.3333 | 89.1892 | 71 | 32 | 70 | 14 | 12 | 85.7143 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e0 | * | 75.4526 | 60.7935 | 99.4275 | 94.2638 | 521 | 336 | 521 | 3 | 1 | 33.3333 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 75.4546 | 74.3184 | 76.6261 | 71.7256 | 70193 | 24256 | 70132 | 21393 | 20093 | 93.9232 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 75.4613 | 91.1765 | 64.3669 | 39.3284 | 775 | 75 | 849 | 470 | 455 | 96.8085 | |
| eyeh-varpipe | INDEL | D6_15 | * | * | 75.4633 | 71.7500 | 79.5820 | 47.2482 | 18721 | 7371 | 18658 | 4787 | 4643 | 96.9919 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | homalt | 75.4653 | 60.6143 | 99.9554 | 56.7172 | 11210 | 7284 | 11210 | 5 | 5 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 75.4653 | 90.5356 | 64.6962 | 41.2162 | 1234 | 129 | 9456 | 5160 | 4823 | 93.4690 | |
| gduggal-bwavard | INDEL | * | tech_badpromoters | homalt | 75.4717 | 60.6061 | 100.0000 | 54.7619 | 20 | 13 | 19 | 0 | 0 | ||
| ciseli-custom | SNP | ti | map_l100_m1_e0 | hetalt | 75.4717 | 68.9655 | 83.3333 | 68.8312 | 20 | 9 | 20 | 4 | 4 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 75.4717 | 100.0000 | 60.6061 | 66.3265 | 8 | 0 | 20 | 13 | 6 | 46.1538 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 75.4767 | 66.4516 | 87.3385 | 73.7805 | 103 | 52 | 338 | 49 | 46 | 93.8776 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 75.4780 | 60.8939 | 99.2481 | 29.2553 | 109 | 70 | 132 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e0 | hetalt | 75.4805 | 61.6000 | 97.4359 | 93.3219 | 77 | 48 | 38 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | map_l100_m1_e0 | het | 75.4825 | 69.5652 | 82.5000 | 81.5668 | 32 | 14 | 33 | 7 | 7 | 100.0000 | |
| ciseli-custom | SNP | tv | map_l125_m0_e0 | * | 75.4859 | 70.1855 | 81.6523 | 81.6008 | 4654 | 1977 | 4655 | 1046 | 265 | 25.3346 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 75.4927 | 64.2630 | 91.4781 | 75.0188 | 1212 | 674 | 1213 | 113 | 36 | 31.8584 | |
| jmaeng-gatk | SNP | tv | map_l125_m0_e0 | * | 75.4933 | 61.9967 | 96.5015 | 90.4918 | 4111 | 2520 | 4110 | 149 | 7 | 4.6980 | |
| gduggal-bwavard | INDEL | D6_15 | map_siren | * | 75.5000 | 73.4774 | 77.6371 | 87.1753 | 374 | 135 | 368 | 106 | 86 | 81.1321 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 75.5102 | 62.7119 | 94.8718 | 85.9206 | 37 | 22 | 37 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | SNP | * | map_l100_m1_e0 | homalt | 75.5140 | 60.6673 | 99.9817 | 70.3269 | 16382 | 10621 | 16370 | 3 | 3 | 100.0000 | |
| ckim-gatk | SNP | * | map_l150_m0_e0 | het | 75.5141 | 62.1285 | 96.2515 | 93.6797 | 4933 | 3007 | 4930 | 192 | 25 | 13.0208 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 75.5177 | 64.5833 | 90.9091 | 92.6829 | 31 | 17 | 30 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | * | map_l250_m1_e0 | * | 75.5265 | 65.5738 | 89.0411 | 97.9332 | 200 | 105 | 260 | 32 | 16 | 50.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_siren | * | 75.5337 | 73.4774 | 77.7083 | 86.7293 | 374 | 135 | 373 | 107 | 94 | 87.8505 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 75.5346 | 70.5119 | 81.3276 | 50.1751 | 5110 | 2137 | 6481 | 1488 | 1088 | 73.1183 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 75.5393 | 80.5556 | 71.1111 | 90.6832 | 29 | 7 | 32 | 13 | 6 | 46.1538 | |
| anovak-vg | INDEL | D6_15 | segdup | het | 75.5396 | 76.0870 | 75.0000 | 93.8242 | 70 | 22 | 78 | 26 | 20 | 76.9231 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 75.5473 | 67.1642 | 86.3216 | 61.1351 | 360 | 176 | 467 | 74 | 64 | 86.4865 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 75.5515 | 69.4611 | 82.8125 | 75.1938 | 116 | 51 | 53 | 11 | 10 | 90.9091 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 75.5526 | 81.0392 | 70.7618 | 54.7757 | 5599 | 1310 | 4245 | 1754 | 345 | 19.6693 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.5534 | 70.8134 | 80.9735 | 44.8780 | 296 | 122 | 183 | 43 | 43 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | homalt | 75.5546 | 60.7338 | 99.9438 | 75.6613 | 3559 | 2301 | 3559 | 2 | 0 | 0.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 75.5556 | 65.3846 | 89.4737 | 97.1386 | 17 | 9 | 17 | 2 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | hetalt | 75.5556 | 60.7143 | 100.0000 | 88.1119 | 51 | 33 | 51 | 0 | 0 | ||
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.5556 | 62.9630 | 94.4444 | 97.0540 | 17 | 10 | 17 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.5556 | 62.9630 | 94.4444 | 97.9310 | 17 | 10 | 17 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.5556 | 62.9630 | 94.4444 | 97.6471 | 17 | 10 | 17 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.5556 | 62.9630 | 94.4444 | 97.7584 | 17 | 10 | 17 | 1 | 0 | 0.0000 | |
| anovak-vg | SNP | tv | map_l150_m1_e0 | het | 75.5604 | 90.6277 | 64.7889 | 80.5286 | 6295 | 651 | 6291 | 3419 | 787 | 23.0184 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 75.5641 | 66.4251 | 87.6190 | 72.9614 | 275 | 139 | 276 | 39 | 39 | 100.0000 | |