PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49351-49400 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | tv | HG002complexvar | hetalt | 93.4708 | 87.7419 | 100.0000 | 29.5337 | 272 | 38 | 272 | 0 | 0 | ||
| ckim-isaac | SNP | * | HG002complexvar | hetalt | 93.4708 | 87.7419 | 100.0000 | 29.5337 | 272 | 38 | 272 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I1_5 | * | * | 89.8158 | 87.7423 | 91.9898 | 54.5219 | 132196 | 18468 | 131206 | 11425 | 10755 | 94.1357 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.2241 | 87.7430 | 99.4356 | 30.6136 | 2076 | 290 | 2114 | 12 | 11 | 91.6667 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 91.0480 | 87.7443 | 94.6101 | 39.6686 | 12973 | 1812 | 12884 | 734 | 647 | 88.1471 | |
| anovak-vg | SNP | * | map_l125_m0_e0 | het | 76.4858 | 87.7448 | 67.7876 | 82.7028 | 11112 | 1552 | 11006 | 5230 | 1427 | 27.2849 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 67.0246 | 87.7551 | 54.2169 | 78.5530 | 43 | 6 | 45 | 38 | 31 | 81.5789 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.4783 | 87.7551 | 100.0000 | 25.8621 | 43 | 6 | 43 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | segdup | hetalt | 93.4783 | 87.7551 | 100.0000 | 90.0463 | 43 | 6 | 43 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | segdup | hetalt | 93.4783 | 87.7551 | 100.0000 | 90.3587 | 43 | 6 | 43 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | map_siren | het | 86.8687 | 87.7551 | 86.0000 | 83.9744 | 43 | 6 | 43 | 7 | 4 | 57.1429 | |
| jmaeng-gatk | INDEL | D6_15 | segdup | hetalt | 93.4783 | 87.7551 | 100.0000 | 90.8898 | 43 | 6 | 43 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | segdup | hetalt | 93.4783 | 87.7551 | 100.0000 | 90.7328 | 43 | 6 | 43 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D6_15 | segdup | hetalt | 93.4783 | 87.7551 | 100.0000 | 90.6318 | 43 | 6 | 43 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.4783 | 87.7551 | 100.0000 | 29.5082 | 43 | 6 | 43 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | segdup | hetalt | 93.4783 | 87.7551 | 100.0000 | 90.3587 | 43 | 6 | 43 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.4783 | 87.7551 | 100.0000 | 25.8621 | 43 | 6 | 43 | 0 | 0 | ||
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | het | 92.2826 | 87.7562 | 97.3014 | 82.8537 | 40718 | 5681 | 40707 | 1129 | 70 | 6.2002 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | het | 89.4381 | 87.7564 | 91.1854 | 45.1275 | 2738 | 382 | 2100 | 203 | 195 | 96.0591 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | * | 92.0378 | 87.7579 | 96.7564 | 95.8853 | 3147 | 439 | 3162 | 106 | 17 | 16.0377 | |
| anovak-vg | INDEL | D1_5 | map_l100_m1_e0 | het | 83.1436 | 87.7585 | 78.9898 | 84.5440 | 1061 | 148 | 1079 | 287 | 92 | 32.0557 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.2704 | 87.7615 | 99.5173 | 36.9269 | 3356 | 468 | 3505 | 17 | 17 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.2704 | 87.7615 | 99.5173 | 36.9269 | 3356 | 468 | 3505 | 17 | 17 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 93.4823 | 87.7622 | 100.0000 | 53.9683 | 753 | 105 | 754 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | HG002compoundhet | het | 90.1398 | 87.7647 | 92.6471 | 86.3079 | 746 | 104 | 693 | 55 | 49 | 89.0909 | |
| 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 | |
| gduggal-bwavard | INDEL | * | * | homalt | 93.4187 | 87.7664 | 99.8491 | 40.7725 | 109859 | 15313 | 109214 | 165 | 92 | 55.7576 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.9887 | 87.7705 | 88.2080 | 78.0159 | 933 | 130 | 950 | 127 | 70 | 55.1181 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.7018 | 87.7726 | 87.6311 | 81.7733 | 3180 | 443 | 3174 | 448 | 412 | 91.9643 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.9527 | 87.7778 | 90.1596 | 65.0395 | 553 | 77 | 678 | 74 | 57 | 77.0270 | |
| eyeh-varpipe | INDEL | I6_15 | map_siren | homalt | 86.3666 | 87.7778 | 85.0000 | 74.0821 | 79 | 11 | 102 | 18 | 17 | 94.4444 | |
| qzeng-custom | INDEL | I6_15 | map_siren | homalt | 77.8370 | 87.7778 | 69.9187 | 73.1441 | 79 | 11 | 86 | 37 | 1 | 2.7027 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 89.5661 | 87.7820 | 91.4243 | 69.1078 | 1868 | 260 | 1855 | 174 | 164 | 94.2529 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.0232 | 87.7828 | 92.3810 | 89.6907 | 194 | 27 | 194 | 16 | 9 | 56.2500 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.3928 | 87.7828 | 95.3125 | 88.4128 | 194 | 27 | 183 | 9 | 1 | 11.1111 | |
| gduggal-bwafb | INDEL | D6_15 | map_l100_m2_e0 | het | 92.3597 | 87.7863 | 97.4359 | 83.4921 | 115 | 16 | 152 | 4 | 1 | 25.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.0590 | 87.7946 | 98.9950 | 44.8626 | 1453 | 202 | 2364 | 24 | 16 | 66.6667 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.4170 | 87.7992 | 99.8027 | 58.9642 | 22265 | 3094 | 22261 | 44 | 35 | 79.5455 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.1859 | 87.8023 | 99.2727 | 79.4623 | 835 | 116 | 819 | 6 | 5 | 83.3333 | |
| gduggal-bwavard | SNP | ti | tech_badpromoters | homalt | 93.5065 | 87.8049 | 100.0000 | 38.9831 | 36 | 5 | 36 | 0 | 0 | ||
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.2739 | 87.8049 | 97.2222 | 88.5350 | 36 | 5 | 35 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l150_m2_e0 | * | 88.3436 | 87.8049 | 88.8889 | 89.8462 | 72 | 10 | 88 | 11 | 11 | 100.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 73.3373 | 87.8049 | 62.9630 | 84.4380 | 36 | 5 | 34 | 20 | 7 | 35.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 93.5065 | 87.8049 | 100.0000 | 92.9961 | 36 | 5 | 36 | 0 | 0 | ||
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.0000 | 87.8049 | 92.3077 | 89.8964 | 36 | 5 | 36 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8367 | 87.8049 | 96.2567 | 84.7844 | 180 | 25 | 180 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8367 | 87.8049 | 96.2567 | 84.7844 | 180 | 25 | 180 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 90.0000 | 87.8049 | 92.3077 | 83.9506 | 36 | 5 | 36 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.4410 | 87.8049 | 91.1392 | 77.4286 | 72 | 10 | 72 | 7 | 7 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l100_m1_e0 | hetalt | 84.7059 | 87.8049 | 81.8182 | 83.2700 | 36 | 5 | 36 | 8 | 8 | 100.0000 | |