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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75001-75050 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 81.6457 | 73.4098 | 91.9631 | 60.0526 | 704 | 255 | 698 | 61 | 38 | 62.2951 | |
| ckim-gatk | INDEL | I1_5 | * | het | 99.5633 | 99.6774 | 99.4495 | 61.8943 | 78786 | 255 | 78766 | 436 | 147 | 33.7156 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.0994 | 97.6994 | 94.5510 | 57.2127 | 10829 | 255 | 10845 | 625 | 21 | 3.3600 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6815 | 95.5513 | 99.9088 | 57.5685 | 5477 | 255 | 5478 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2678 | 97.2079 | 99.3509 | 74.1300 | 8878 | 255 | 8878 | 58 | 4 | 6.8966 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2678 | 97.2079 | 99.3509 | 74.1300 | 8878 | 255 | 8878 | 58 | 4 | 6.8966 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.9148 | 73.4651 | 97.8302 | 47.7704 | 706 | 255 | 2074 | 46 | 36 | 78.2609 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.5902 | 93.7269 | 99.6340 | 52.3424 | 3810 | 255 | 3811 | 14 | 3 | 21.4286 | |
| gduggal-snapvard | SNP | * | segdup | homalt | 98.5503 | 97.6171 | 99.5016 | 88.8814 | 10487 | 256 | 10381 | 52 | 50 | 96.1538 | |
| qzeng-custom | INDEL | * | map_l150_m2_e1 | het | 81.2150 | 72.2944 | 92.6471 | 95.0678 | 668 | 256 | 819 | 65 | 30 | 46.1538 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 45.1709 | 65.4521 | 34.4852 | 53.4012 | 485 | 256 | 489 | 929 | 918 | 98.8159 | |
| asubramanian-gatk | SNP | ti | segdup | homalt | 98.2382 | 96.5889 | 99.9449 | 87.7431 | 7249 | 256 | 7249 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2962 | 93.5743 | 97.0826 | 62.0727 | 3728 | 256 | 3727 | 112 | 102 | 91.0714 | |
| rpoplin-dv42 | INDEL | D1_5 | * | het | 99.5696 | 99.7077 | 99.4320 | 57.4420 | 87318 | 256 | 87348 | 499 | 434 | 86.9739 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.6408 | 85.0117 | 99.3911 | 29.8196 | 1452 | 256 | 1469 | 9 | 9 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8752 | 97.7839 | 99.9911 | 64.2557 | 11296 | 256 | 11296 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8752 | 97.7839 | 99.9911 | 64.2557 | 11296 | 256 | 11296 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | segdup | homalt | 98.2649 | 96.5889 | 100.0000 | 84.6188 | 7249 | 256 | 7249 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5290 | 95.6844 | 99.4462 | 41.4708 | 5676 | 256 | 5746 | 32 | 30 | 93.7500 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5168 | 99.0808 | 99.9567 | 54.7993 | 27702 | 257 | 27701 | 12 | 5 | 41.6667 | |
| astatham-gatk | INDEL | * | map_siren | het | 96.3193 | 94.2990 | 98.4281 | 84.3550 | 4251 | 257 | 4258 | 68 | 8 | 11.7647 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4476 | 97.2827 | 97.6130 | 45.1498 | 9201 | 257 | 9201 | 225 | 220 | 97.7778 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | * | 99.2735 | 99.4499 | 99.0978 | 72.9518 | 46466 | 257 | 46460 | 423 | 70 | 16.5485 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | * | 99.2798 | 99.4555 | 99.1048 | 72.9953 | 46945 | 257 | 46939 | 424 | 70 | 16.5094 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m1_e0 | het | 63.4349 | 47.1193 | 97.0339 | 78.6038 | 229 | 257 | 229 | 7 | 4 | 57.1429 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.3773 | 91.9938 | 99.0193 | 54.3250 | 2953 | 257 | 2928 | 29 | 29 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6078 | 97.2827 | 97.9351 | 45.4096 | 9201 | 257 | 9201 | 194 | 187 | 96.3918 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 95.7008 | 92.5507 | 99.0729 | 30.3936 | 3193 | 257 | 3206 | 30 | 24 | 80.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.4122 | 85.8946 | 100.0000 | 32.3455 | 1565 | 257 | 1598 | 0 | 0 | ||
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.8622 | 85.4308 | 99.3408 | 88.0041 | 1507 | 257 | 1507 | 10 | 4 | 40.0000 | |
| hfeng-pmm3 | SNP | * | map_l100_m2_e0 | het | 99.5523 | 99.4461 | 99.6587 | 66.2016 | 46142 | 257 | 46131 | 158 | 14 | 8.8608 | |
| hfeng-pmm3 | SNP | * | map_l100_m2_e1 | het | 99.5538 | 99.4499 | 99.6580 | 66.2190 | 46640 | 258 | 46629 | 160 | 14 | 8.7500 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 44.6151 | 28.9256 | 97.5000 | 59.5960 | 105 | 258 | 117 | 3 | 3 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.5625 | 95.5867 | 86.0400 | 54.3416 | 5588 | 258 | 13473 | 2186 | 990 | 45.2882 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.5625 | 95.5867 | 86.0400 | 54.3416 | 5588 | 258 | 13473 | 2186 | 990 | 45.2882 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m0_e0 | het | 98.0155 | 96.4276 | 99.6566 | 50.1035 | 6964 | 258 | 6965 | 24 | 1 | 4.1667 | |
| ckim-gatk | SNP | * | HG002compoundhet | * | 99.3973 | 99.0009 | 99.7970 | 41.7198 | 25564 | 258 | 25561 | 52 | 38 | 73.0769 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 49.9696 | 38.2775 | 71.9457 | 61.2960 | 160 | 258 | 159 | 62 | 56 | 90.3226 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e0 | * | 90.5115 | 93.0138 | 88.1404 | 88.0002 | 3435 | 258 | 3441 | 463 | 191 | 41.2527 | |
| eyeh-varpipe | SNP | tv | * | het | 98.0748 | 99.9564 | 96.2628 | 25.2886 | 591446 | 258 | 583371 | 22648 | 112 | 0.4945 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.7692 | 0.3861 | 100.0000 | 83.3333 | 1 | 258 | 1 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | HG002compoundhet | het | 78.4798 | 97.2856 | 65.7667 | 46.9249 | 9247 | 258 | 9427 | 4907 | 174 | 3.5460 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2005 | 98.5314 | 99.8788 | 66.3539 | 17310 | 258 | 17301 | 21 | 11 | 52.3810 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.1064 | 96.3243 | 99.9558 | 58.4821 | 6761 | 258 | 6786 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 72.8440 | 62.9842 | 86.3636 | 38.2927 | 439 | 258 | 437 | 69 | 65 | 94.2029 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 80.1664 | 67.4653 | 98.7589 | 27.5995 | 535 | 258 | 557 | 7 | 6 | 85.7143 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.5265 | 61.2613 | 85.9244 | 78.5005 | 408 | 258 | 409 | 67 | 27 | 40.2985 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.5265 | 61.2613 | 85.9244 | 78.5005 | 408 | 258 | 409 | 67 | 27 | 40.2985 | |
| dgrover-gatk | SNP | ti | map_l100_m2_e0 | * | 99.5249 | 99.4730 | 99.5767 | 67.5957 | 48703 | 258 | 48696 | 207 | 50 | 24.1546 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3454 | 90.6386 | 94.1176 | 50.5132 | 2498 | 258 | 2496 | 156 | 154 | 98.7179 | |