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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42751-42800 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I6_15 | map_l150_m1_e0 | homalt | 74.4681 | 71.4286 | 77.7778 | 91.4286 | 5 | 2 | 7 | 2 | 1 | 50.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m2_e0 | homalt | 74.4681 | 71.4286 | 77.7778 | 92.8000 | 5 | 2 | 7 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 74.4676 | 94.6746 | 61.3692 | 51.5690 | 160 | 9 | 502 | 316 | 146 | 46.2025 | |
| ciseli-custom | SNP | ti | map_l125_m0_e0 | het | 74.4671 | 68.2803 | 81.8868 | 84.0446 | 5642 | 2621 | 5642 | 1248 | 40 | 3.2051 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | homalt | 74.4541 | 65.8301 | 85.6784 | 74.7141 | 341 | 177 | 341 | 57 | 55 | 96.4912 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 74.4538 | 73.6260 | 75.3005 | 77.0932 | 69539 | 24910 | 69470 | 22787 | 21717 | 95.3043 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 74.4526 | 59.3023 | 100.0000 | 68.1818 | 51 | 35 | 42 | 0 | 0 | ||
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 74.4494 | 60.3774 | 97.0745 | 67.4459 | 352 | 231 | 365 | 11 | 11 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l100_m2_e1 | homalt | 74.4467 | 68.1285 | 82.0565 | 52.6294 | 18937 | 8859 | 18937 | 4141 | 3961 | 95.6532 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 74.4454 | 59.6206 | 99.0826 | 87.0083 | 220 | 149 | 216 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 74.4444 | 94.3662 | 61.4679 | 54.5833 | 67 | 4 | 67 | 42 | 42 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l250_m2_e0 | * | 74.4444 | 59.2920 | 100.0000 | 97.1108 | 67 | 46 | 67 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l150_m2_e1 | het | 74.4402 | 59.5688 | 99.2072 | 92.2354 | 12130 | 8233 | 12138 | 97 | 27 | 27.8351 | |
| gduggal-bwaplat | SNP | * | map_l125_m1_e0 | * | 74.4387 | 59.4965 | 99.4030 | 86.9422 | 26968 | 18359 | 26975 | 162 | 46 | 28.3951 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 74.4244 | 62.1108 | 92.8275 | 37.1477 | 3631 | 2215 | 8943 | 691 | 673 | 97.3951 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 74.4244 | 62.1108 | 92.8275 | 37.1477 | 3631 | 2215 | 8943 | 691 | 673 | 97.3951 | |
| gduggal-bwaplat | INDEL | D16_PLUS | map_l125_m1_e0 | * | 74.4186 | 59.2593 | 100.0000 | 97.0909 | 16 | 11 | 16 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D16_PLUS | map_l125_m2_e0 | * | 74.4186 | 59.2593 | 100.0000 | 97.3597 | 16 | 11 | 16 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m1_e0 | het | 74.4186 | 59.7510 | 98.6301 | 96.0087 | 288 | 194 | 288 | 4 | 1 | 25.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_l150_m0_e0 | het | 74.4186 | 100.0000 | 59.2593 | 91.4013 | 4 | 0 | 16 | 11 | 8 | 72.7273 | |
| ciseli-custom | SNP | ti | map_l125_m1_e0 | hetalt | 74.4186 | 66.6667 | 84.2105 | 67.2414 | 16 | 8 | 16 | 3 | 3 | 100.0000 | |
| ciseli-custom | SNP | ti | map_l125_m2_e0 | hetalt | 74.4186 | 66.6667 | 84.2105 | 73.6111 | 16 | 8 | 16 | 3 | 3 | 100.0000 | |
| ciseli-custom | SNP | ti | map_l125_m2_e1 | hetalt | 74.4186 | 66.6667 | 84.2105 | 73.9726 | 16 | 8 | 16 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | * | tech_badpromoters | het | 74.4186 | 82.0513 | 68.0851 | 50.5263 | 32 | 7 | 32 | 15 | 15 | 100.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 74.4186 | 80.0000 | 69.5652 | 99.3068 | 16 | 4 | 16 | 7 | 4 | 57.1429 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m0_e0 | homalt | 74.4048 | 60.0962 | 97.6562 | 75.2418 | 125 | 83 | 125 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 74.4043 | 72.9730 | 75.8929 | 83.4686 | 162 | 60 | 170 | 54 | 48 | 88.8889 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 74.4023 | 70.1058 | 79.2599 | 38.2733 | 14439 | 6157 | 14671 | 3839 | 3773 | 98.2808 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 74.4014 | 87.0872 | 64.9416 | 71.9724 | 5591 | 829 | 6613 | 3570 | 542 | 15.1821 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 74.4014 | 87.0872 | 64.9416 | 71.9724 | 5591 | 829 | 6613 | 3570 | 542 | 15.1821 | |
| ciseli-custom | SNP | ti | map_l150_m2_e1 | het | 74.4004 | 68.8974 | 80.8587 | 84.6760 | 8967 | 4048 | 8964 | 2122 | 62 | 2.9218 | |
| qzeng-custom | SNP | ti | map_l250_m2_e0 | * | 74.3996 | 62.1406 | 92.6844 | 95.5558 | 3112 | 1896 | 3104 | 245 | 206 | 84.0816 | |
| ciseli-custom | SNP | tv | map_l100_m0_e0 | het | 74.3908 | 68.0559 | 82.0260 | 79.9973 | 4915 | 2307 | 4915 | 1077 | 42 | 3.8997 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 74.3814 | 59.9765 | 97.8927 | 91.3619 | 511 | 341 | 511 | 11 | 10 | 90.9091 | |
| ciseli-custom | SNP | ti | map_l150_m2_e0 | het | 74.3678 | 68.8533 | 80.8425 | 84.6368 | 8869 | 4012 | 8866 | 2101 | 62 | 2.9510 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 74.3678 | 72.8507 | 75.9494 | 87.5981 | 161 | 60 | 180 | 57 | 16 | 28.0702 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 74.3677 | 90.7279 | 63.0063 | 70.4907 | 2231 | 228 | 2209 | 1297 | 1197 | 92.2899 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 74.3629 | 60.5839 | 96.2547 | 84.1166 | 249 | 162 | 257 | 10 | 6 | 60.0000 | |
| gduggal-snapfb | INDEL | I6_15 | func_cds | * | 74.3590 | 67.4419 | 82.8571 | 33.9623 | 29 | 14 | 29 | 6 | 6 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | segdup | hetalt | 74.3590 | 59.1837 | 100.0000 | 89.2193 | 29 | 20 | 29 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 74.3590 | 60.4167 | 96.6667 | 96.4200 | 29 | 19 | 29 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | homalt | 74.3512 | 83.5821 | 66.9565 | 84.9279 | 56 | 11 | 77 | 38 | 35 | 92.1053 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 74.3482 | 63.4615 | 89.7436 | 70.8955 | 33 | 19 | 35 | 4 | 4 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 74.3472 | 92.7273 | 62.0482 | 92.1103 | 102 | 8 | 103 | 63 | 45 | 71.4286 | |
| anovak-vg | SNP | * | map_l250_m1_e0 | * | 74.3435 | 81.2102 | 68.5475 | 91.2491 | 5865 | 1357 | 5819 | 2670 | 600 | 22.4719 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 74.3375 | 67.6709 | 82.4611 | 55.4224 | 584 | 279 | 583 | 124 | 122 | 98.3871 | |
| ndellapenna-hhga | INDEL | I16_PLUS | map_siren | hetalt | 74.3243 | 62.5000 | 91.6667 | 84.0000 | 10 | 6 | 11 | 1 | 1 | 100.0000 | |
| 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 | |
| jpowers-varprowl | INDEL | D6_15 | * | homalt | 74.3238 | 61.6345 | 93.5925 | 52.0152 | 3899 | 2427 | 3900 | 267 | 242 | 90.6367 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 74.3169 | 66.6667 | 83.9506 | 94.3906 | 68 | 34 | 68 | 13 | 3 | 23.0769 | |