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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72501-72550 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D6_15 | map_l100_m0_e0 | het | 79.1367 | 91.6667 | 69.6203 | 89.0733 | 55 | 5 | 55 | 24 | 21 | 87.5000 | |
| anovak-vg | INDEL | * | tech_badpromoters | homalt | 76.1124 | 75.7576 | 76.4706 | 47.6923 | 25 | 8 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 49.6562 | 36.7647 | 76.4706 | 96.4620 | 25 | 43 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 64.7059 | 73.3333 | 57.8947 | 97.5734 | 11 | 4 | 11 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.9373 | 88.3333 | 95.8478 | 79.7335 | 424 | 56 | 554 | 24 | 21 | 87.5000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4861 | 97.9849 | 98.9924 | 89.4091 | 778 | 16 | 786 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.5782 | 86.5532 | 99.5046 | 32.0000 | 1577 | 245 | 1607 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.7615 | 97.6623 | 97.8610 | 79.0945 | 376 | 9 | 366 | 8 | 7 | 87.5000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.8944 | 97.9221 | 97.8667 | 79.3046 | 377 | 8 | 367 | 8 | 7 | 87.5000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6848 | 91.6268 | 97.9540 | 67.5249 | 766 | 70 | 766 | 16 | 14 | 87.5000 | |
| anovak-vg | INDEL | I6_15 | func_cds | homalt | 75.6757 | 93.3333 | 63.6364 | 35.2941 | 14 | 1 | 14 | 8 | 7 | 87.5000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.3912 | 98.6014 | 98.1818 | 44.9656 | 846 | 12 | 864 | 16 | 14 | 87.5000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7905 | 99.6289 | 99.9527 | 66.4771 | 16912 | 63 | 16912 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7905 | 99.6289 | 99.9527 | 66.4771 | 16912 | 63 | 16912 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3312 | 99.2264 | 99.4362 | 88.4220 | 1411 | 11 | 1411 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3884 | 99.2047 | 99.5729 | 68.2811 | 1871 | 15 | 1865 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m1_e0 | homalt | 98.6256 | 97.6045 | 99.6683 | 85.3151 | 2404 | 59 | 2404 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e1 | homalt | 98.6994 | 97.7189 | 99.6997 | 86.4012 | 2656 | 62 | 2656 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | ti | map_l125_m0_e0 | homalt | 99.0916 | 98.3745 | 99.8192 | 66.7668 | 4418 | 73 | 4418 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9300 | 96.4838 | 99.4203 | 88.6662 | 1372 | 50 | 1372 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8731 | 98.0246 | 99.7364 | 69.1784 | 3027 | 61 | 3027 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.8529 | 82.0562 | 83.6653 | 62.9041 | 1724 | 377 | 1680 | 328 | 287 | 87.5000 | |
| asubramanian-gatk | INDEL | * | segdup | homalt | 99.1667 | 99.1667 | 99.1667 | 93.6609 | 952 | 8 | 952 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1850 | 95.5951 | 98.8287 | 37.6825 | 1237 | 57 | 1350 | 16 | 14 | 87.5000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 84.6348 | 77.0701 | 93.8462 | 62.2093 | 121 | 36 | 122 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 78.8405 | 65.4387 | 99.1453 | 42.4354 | 977 | 516 | 928 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | D1_5 | map_siren | homalt | 99.4012 | 99.4863 | 99.3162 | 80.2231 | 1162 | 6 | 1162 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | D1_5 | segdup | het | 98.1532 | 99.7110 | 96.6434 | 93.9982 | 690 | 2 | 691 | 24 | 21 | 87.5000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4599 | 98.5626 | 98.3573 | 64.0590 | 480 | 7 | 479 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.8820 | 73.9003 | 96.9811 | 55.3872 | 252 | 89 | 257 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.4542 | 76.7025 | 96.4602 | 65.3905 | 214 | 65 | 218 | 8 | 7 | 87.5000 | |
| ckim-vqsr | SNP | * | HG002compoundhet | homalt | 98.6617 | 97.4309 | 99.9239 | 35.4419 | 10505 | 277 | 10504 | 8 | 7 | 87.5000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2442 | 99.0799 | 99.4092 | 87.9842 | 2692 | 25 | 2692 | 16 | 14 | 87.5000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.0685 | 99.0142 | 99.1228 | 89.4371 | 904 | 9 | 904 | 8 | 7 | 87.5000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7250 | 99.6324 | 97.8339 | 67.7720 | 1084 | 4 | 1084 | 24 | 21 | 87.5000 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | homalt | 99.8538 | 99.8585 | 99.8491 | 60.1802 | 10583 | 15 | 10590 | 16 | 14 | 87.5000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.7615 | 97.6623 | 97.8610 | 79.2798 | 376 | 9 | 366 | 8 | 7 | 87.5000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6284 | 97.4026 | 97.8552 | 79.4942 | 375 | 10 | 365 | 8 | 7 | 87.5000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.8462 | 100.0000 | 88.4058 | 91.4604 | 61 | 0 | 61 | 8 | 7 | 87.5000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3666 | 99.2968 | 99.4366 | 88.7015 | 1412 | 10 | 1412 | 8 | 7 | 87.5000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2892 | 99.4524 | 99.1266 | 89.6532 | 908 | 5 | 908 | 8 | 7 | 87.5000 | |
| ckim-isaac | INDEL | I16_PLUS | HG002compoundhet | hetalt | 65.1901 | 48.5428 | 99.2149 | 33.3115 | 1016 | 1077 | 1011 | 8 | 7 | 87.5000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 77.3091 | 63.7658 | 98.1567 | 37.9113 | 403 | 229 | 426 | 8 | 7 | 87.5000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 87.4670 | 80.5556 | 95.6757 | 56.8765 | 174 | 42 | 177 | 8 | 7 | 87.5000 | |
| ckim-isaac | SNP | * | HG002compoundhet | homalt | 90.1933 | 82.4430 | 99.5521 | 29.8507 | 8889 | 1893 | 8890 | 40 | 35 | 87.5000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.4799 | 95.1964 | 99.8756 | 26.6788 | 6421 | 324 | 6423 | 8 | 7 | 87.5000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7945 | 99.7208 | 99.8684 | 54.9696 | 6071 | 17 | 6072 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 0.0000 | 0.0000 | 93.7008 | 92.4584 | 0 | 0 | 119 | 8 | 7 | 87.5000 | |