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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19601-19650 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.0508 | 98.2646 | 99.8497 | 54.9729 | 1359 | 24 | 1329 | 2 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.1991 | 98.2644 | 96.1566 | 80.7160 | 1472 | 26 | 1326 | 53 | 19 | 35.8491 | |
| ckim-vqsr | INDEL | D1_5 | HG002compoundhet | het | 96.1223 | 98.2639 | 94.0720 | 78.9357 | 1698 | 30 | 1698 | 107 | 105 | 98.1308 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | het | 96.0425 | 98.2639 | 93.9193 | 78.7076 | 1698 | 30 | 1699 | 110 | 109 | 99.0909 | |
| 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 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8505 | 98.2637 | 99.4444 | 73.4266 | 14318 | 253 | 14318 | 80 | 15 | 18.7500 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8505 | 98.2637 | 99.4444 | 73.4266 | 14318 | 253 | 14318 | 80 | 15 | 18.7500 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m1_e0 | het | 98.4276 | 98.2630 | 98.5927 | 82.4444 | 1188 | 21 | 1191 | 17 | 4 | 23.5294 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | het | 98.0207 | 98.2630 | 97.7796 | 82.5011 | 1188 | 21 | 1189 | 27 | 7 | 25.9259 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3660 | 98.2626 | 98.4696 | 72.6251 | 92808 | 1641 | 92717 | 1441 | 1058 | 73.4212 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | homalt | 97.3535 | 98.2625 | 96.4612 | 82.0271 | 509 | 9 | 845 | 31 | 28 | 90.3226 | |
| rpoplin-dv42 | SNP | * | map_l150_m0_e0 | het | 98.3050 | 98.2620 | 98.3480 | 79.4809 | 7802 | 138 | 7799 | 131 | 82 | 62.5954 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 93.4498 | 98.2619 | 89.0871 | 88.3254 | 848 | 15 | 849 | 104 | 6 | 5.7692 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3899 | 98.2619 | 98.5182 | 61.1046 | 6897 | 122 | 6848 | 103 | 31 | 30.0971 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m1_e0 | het | 98.9516 | 98.2617 | 99.6512 | 54.6439 | 15149 | 268 | 15144 | 53 | 5 | 9.4340 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m0_e0 | het | 89.3281 | 98.2609 | 81.8841 | 92.0000 | 339 | 6 | 339 | 75 | 9 | 12.0000 | |
| ckim-gatk | INDEL | * | map_l250_m2_e0 | homalt | 98.2609 | 98.2609 | 98.2609 | 95.6538 | 113 | 2 | 113 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 89.4716 | 98.2609 | 82.1256 | 91.8808 | 339 | 6 | 340 | 74 | 2 | 2.7027 | |
| hfeng-pmm3 | INDEL | * | map_l250_m2_e0 | homalt | 97.8355 | 98.2609 | 97.4138 | 94.1971 | 113 | 2 | 113 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | * | map_l250_m2_e0 | homalt | 98.2609 | 98.2609 | 98.2609 | 94.7513 | 113 | 2 | 113 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | map_l250_m2_e0 | homalt | 97.8355 | 98.2609 | 97.4138 | 95.2692 | 113 | 2 | 113 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | homalt | 97.8355 | 98.2609 | 97.4138 | 95.3432 | 113 | 2 | 113 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 97.5585 | 98.2609 | 96.8661 | 90.0256 | 339 | 6 | 340 | 11 | 1 | 9.0909 | |
| ckim-vqsr | INDEL | * | map_l250_m2_e0 | homalt | 98.6900 | 98.2609 | 99.1228 | 95.6900 | 113 | 2 | 113 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m0_e0 | het | 97.8094 | 98.2609 | 97.3621 | 87.4018 | 339 | 6 | 406 | 11 | 4 | 36.3636 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.7284 | 98.2608 | 80.8820 | 41.3226 | 10226 | 181 | 10564 | 2497 | 2416 | 96.7561 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.0605 | 98.2598 | 99.8745 | 43.2288 | 1581 | 28 | 1591 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8911 | 98.2585 | 99.5318 | 46.2230 | 1467 | 26 | 1488 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0215 | 98.2585 | 99.7963 | 32.1198 | 1467 | 26 | 1470 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.7782 | 98.2578 | 97.3034 | 68.5775 | 4681 | 83 | 4763 | 132 | 5 | 3.7879 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5596 | 98.2560 | 98.8651 | 66.9902 | 3831 | 68 | 3833 | 44 | 35 | 79.5455 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5423 | 98.2558 | 98.8304 | 81.6327 | 169 | 3 | 169 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | * | het | 98.8608 | 98.2558 | 99.4734 | 57.1305 | 9858 | 175 | 9823 | 52 | 34 | 65.3846 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e0 | homalt | 98.5676 | 98.2554 | 98.8818 | 84.8792 | 1239 | 22 | 1238 | 14 | 12 | 85.7143 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e0 | homalt | 98.5288 | 98.2554 | 98.8038 | 83.0311 | 1239 | 22 | 1239 | 15 | 10 | 66.6667 | |
| astatham-gatk | SNP | tv | HG002complexvar | * | 99.1122 | 98.2547 | 99.9847 | 22.3181 | 241856 | 4296 | 241769 | 37 | 21 | 56.7568 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.5761 | 98.2544 | 96.9072 | 81.0824 | 394 | 7 | 376 | 12 | 5 | 41.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9496 | 98.2541 | 99.6549 | 70.5915 | 92800 | 1649 | 92707 | 321 | 262 | 81.6199 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6793 | 98.2539 | 97.1113 | 81.2381 | 44904 | 798 | 44812 | 1333 | 148 | 11.1028 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6793 | 98.2539 | 97.1113 | 81.2381 | 44904 | 798 | 44812 | 1333 | 148 | 11.1028 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8899 | 98.2537 | 99.5345 | 61.1292 | 1069 | 19 | 1069 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 96.0523 | 98.2537 | 93.9474 | 90.3553 | 1069 | 19 | 1071 | 69 | 6 | 8.6957 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.1067 | 98.2534 | 99.9750 | 43.4659 | 3994 | 71 | 3992 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.9373 | 98.2533 | 99.6310 | 67.7611 | 1350 | 24 | 1350 | 5 | 1 | 20.0000 | |
| jlack-gatk | SNP | ti | map_l150_m1_e0 | homalt | 99.0574 | 98.2530 | 99.8751 | 68.9978 | 7199 | 128 | 7199 | 9 | 7 | 77.7778 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4871 | 98.2529 | 96.7332 | 77.3918 | 3093 | 55 | 3198 | 108 | 35 | 32.4074 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | het | 98.5612 | 98.2523 | 98.8721 | 88.8393 | 5172 | 92 | 5172 | 59 | 11 | 18.6441 | |
| ltrigg-rtg1 | INDEL | * | HG002complexvar | het | 98.9136 | 98.2515 | 99.5847 | 53.0906 | 45404 | 808 | 44604 | 186 | 79 | 42.4731 | |
| raldana-dualsentieon | SNP | * | map_l250_m0_e0 | homalt | 98.7220 | 98.2512 | 99.1974 | 90.2732 | 618 | 11 | 618 | 5 | 2 | 40.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1030 | 98.2511 | 99.9699 | 50.6031 | 10000 | 178 | 9949 | 3 | 2 | 66.6667 | |