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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47401-47450 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | D6_15 | map_siren | * | 82.8291 | 73.2809 | 95.2381 | 76.5845 | 373 | 136 | 380 | 19 | 17 | 89.4737 | |
| qzeng-custom | INDEL | D6_15 | map_siren | * | 82.8301 | 89.5874 | 77.0206 | 83.5033 | 456 | 53 | 486 | 145 | 21 | 14.4828 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 82.8316 | 98.2639 | 71.5886 | 71.6226 | 1415 | 25 | 1406 | 558 | 11 | 1.9713 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.8342 | 75.6494 | 91.5271 | 45.0163 | 932 | 300 | 929 | 86 | 62 | 72.0930 | |
| qzeng-custom | INDEL | * | map_l100_m0_e0 | homalt | 82.8374 | 73.4774 | 94.9301 | 85.9563 | 374 | 135 | 543 | 29 | 6 | 20.6897 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 82.8388 | 70.8349 | 99.7415 | 27.5927 | 3852 | 1586 | 3858 | 10 | 10 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | * | 82.8475 | 71.9345 | 97.6638 | 84.1509 | 23624 | 9217 | 23620 | 565 | 48 | 8.4956 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.8480 | 83.5616 | 82.1464 | 73.3422 | 732 | 144 | 819 | 178 | 170 | 95.5056 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.8484 | 78.1915 | 88.0952 | 60.0000 | 147 | 41 | 148 | 20 | 19 | 95.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.8529 | 82.0562 | 83.6653 | 62.9041 | 1724 | 377 | 1680 | 328 | 287 | 87.5000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 82.8549 | 77.7251 | 88.7097 | 61.5702 | 164 | 47 | 165 | 21 | 20 | 95.2381 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 82.8565 | 74.9009 | 92.7029 | 85.1241 | 1134 | 380 | 1245 | 98 | 12 | 12.2449 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.8571 | 80.5556 | 85.2941 | 66.0000 | 29 | 7 | 29 | 5 | 5 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | segdup | het | 82.8571 | 78.3784 | 87.8788 | 91.3613 | 29 | 8 | 29 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.8586 | 98.6945 | 71.4019 | 83.3644 | 378 | 5 | 382 | 153 | 93 | 60.7843 | |
| qzeng-custom | INDEL | * | map_l125_m2_e0 | * | 82.8587 | 74.2259 | 93.7640 | 91.6841 | 1630 | 566 | 2090 | 139 | 47 | 33.8129 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 82.8608 | 81.8751 | 83.8705 | 37.8607 | 16863 | 3733 | 16941 | 3258 | 3048 | 93.5543 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 82.8671 | 76.7932 | 89.9844 | 83.5648 | 1092 | 330 | 1150 | 128 | 68 | 53.1250 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m2_e1 | * | 82.8676 | 78.1544 | 88.1857 | 95.5224 | 415 | 116 | 418 | 56 | 2 | 3.5714 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | * | 82.8691 | 71.9040 | 97.7802 | 83.9171 | 23614 | 9227 | 23610 | 536 | 48 | 8.9552 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 82.8729 | 92.5926 | 75.0000 | 96.8504 | 25 | 2 | 3 | 1 | 0 | 0.0000 | |
| anovak-vg | INDEL | D6_15 | map_l100_m1_e0 | homalt | 82.8729 | 75.0000 | 92.5926 | 84.7025 | 48 | 16 | 50 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 82.8729 | 92.5926 | 75.0000 | 96.7742 | 25 | 2 | 3 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e0 | homalt | 82.8773 | 71.6667 | 98.2456 | 94.4714 | 43 | 17 | 56 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 82.8791 | 91.0940 | 76.0233 | 83.7724 | 26154 | 2557 | 25854 | 8154 | 268 | 3.2867 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 82.8791 | 91.0940 | 76.0233 | 83.7724 | 26154 | 2557 | 25854 | 8154 | 268 | 3.2867 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | homalt | 82.8857 | 72.7642 | 96.2779 | 92.5618 | 358 | 134 | 388 | 15 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.8877 | 86.3510 | 79.6915 | 44.5869 | 310 | 49 | 310 | 79 | 52 | 65.8228 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e1 | homalt | 82.8881 | 71.6667 | 98.2759 | 94.5283 | 43 | 17 | 57 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.8897 | 76.2238 | 90.8333 | 92.9947 | 109 | 34 | 109 | 11 | 1 | 9.0909 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 82.8907 | 73.1218 | 95.6723 | 82.2308 | 2258 | 830 | 2277 | 103 | 19 | 18.4466 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 82.8931 | 71.4423 | 98.7151 | 55.3864 | 2229 | 891 | 2228 | 29 | 26 | 89.6552 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.8938 | 71.8447 | 97.9592 | 42.5781 | 148 | 58 | 144 | 3 | 2 | 66.6667 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.8947 | 98.6945 | 71.4556 | 84.9886 | 378 | 5 | 378 | 151 | 124 | 82.1192 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 82.8962 | 72.3404 | 97.0588 | 92.0188 | 34 | 13 | 33 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 82.8968 | 94.7123 | 73.7023 | 85.2096 | 6305 | 352 | 6233 | 2224 | 80 | 3.5971 | |
| anovak-vg | INDEL | D1_5 | map_l125_m0_e0 | homalt | 82.9069 | 73.6486 | 94.8276 | 89.1386 | 109 | 39 | 110 | 6 | 5 | 83.3333 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 82.9090 | 71.0794 | 99.4624 | 29.2776 | 349 | 142 | 370 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e1 | * | 82.9105 | 71.3793 | 98.8854 | 87.6621 | 621 | 249 | 621 | 7 | 2 | 28.5714 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e0 | hetalt | 82.9138 | 72.0000 | 97.7273 | 89.6104 | 90 | 35 | 86 | 2 | 1 | 50.0000 | |
| qzeng-custom | SNP | ti | map_l125_m1_e0 | homalt | 82.9138 | 71.1453 | 99.3472 | 63.5077 | 7858 | 3187 | 7762 | 51 | 50 | 98.0392 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 82.9227 | 78.1124 | 88.3643 | 60.1791 | 3112 | 872 | 3182 | 419 | 327 | 78.0430 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e0 | homalt | 82.9231 | 72.3164 | 97.1761 | 79.6553 | 384 | 147 | 585 | 17 | 3 | 17.6471 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 82.9234 | 95.9538 | 73.0088 | 76.1352 | 332 | 14 | 330 | 122 | 85 | 69.6721 | |
| gduggal-bwavard | INDEL | I1_5 | tech_badpromoters | * | 82.9268 | 77.2727 | 89.4737 | 53.6585 | 17 | 5 | 17 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 82.9268 | 82.2581 | 83.6066 | 84.9383 | 51 | 11 | 51 | 10 | 2 | 20.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m0_e0 | homalt | 82.9268 | 70.8333 | 100.0000 | 86.9231 | 17 | 7 | 17 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | map_l250_m0_e0 | * | 82.9268 | 87.1795 | 79.0698 | 99.4172 | 68 | 10 | 68 | 18 | 1 | 5.5556 | |
| jpowers-varprowl | INDEL | D6_15 | map_l100_m0_e0 | homalt | 82.9268 | 70.8333 | 100.0000 | 87.0229 | 17 | 7 | 17 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D16_PLUS | * | * | 82.9287 | 71.7129 | 98.3034 | 72.8727 | 4865 | 1919 | 4867 | 84 | 65 | 77.3810 | |