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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73451-73500 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4978 | 99.2429 | 99.7541 | 54.5635 | 25167 | 192 | 25148 | 62 | 34 | 54.8387 | |
| mlin-fermikit | SNP | tv | segdup | het | 97.5120 | 96.3685 | 98.6829 | 87.0738 | 5095 | 192 | 5095 | 68 | 1 | 1.4706 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.8406 | 96.8379 | 94.8635 | 56.7607 | 5880 | 192 | 5873 | 318 | 299 | 94.0252 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.6321 | 89.4447 | 85.8915 | 75.4124 | 1627 | 192 | 1869 | 307 | 263 | 85.6678 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.6321 | 89.4447 | 85.8915 | 75.4124 | 1627 | 192 | 1869 | 307 | 263 | 85.6678 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1506 | 94.9540 | 99.4513 | 30.8218 | 3613 | 192 | 3625 | 20 | 19 | 95.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 88.8814 | 87.5486 | 90.2554 | 74.8436 | 1350 | 192 | 1343 | 145 | 136 | 93.7931 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 4.7393 | 2.5381 | 35.7143 | 92.6316 | 5 | 192 | 5 | 9 | 7 | 77.7778 | |
| ltrigg-rtg1 | SNP | tv | * | homalt | 99.9663 | 99.9491 | 99.9836 | 19.8090 | 376929 | 192 | 376963 | 62 | 42 | 67.7419 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.0510 | 92.4380 | 99.9581 | 32.0604 | 2347 | 192 | 2383 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4117 | 94.9540 | 100.0000 | 30.3657 | 3613 | 192 | 3637 | 0 | 0 | ||
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.2920 | 98.4666 | 96.1450 | 64.1784 | 12329 | 192 | 12171 | 488 | 413 | 84.6311 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8203 | 99.3835 | 98.2634 | 72.4925 | 30951 | 192 | 30951 | 547 | 35 | 6.3985 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8203 | 99.3835 | 98.2634 | 72.4925 | 30951 | 192 | 30951 | 547 | 35 | 6.3985 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.9665 | 85.1278 | 100.0000 | 30.7314 | 1099 | 192 | 1127 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D6_15 | HG002complexvar | * | 97.1394 | 96.3787 | 97.9123 | 57.5494 | 5110 | 192 | 5112 | 109 | 99 | 90.8257 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3452 | 92.0365 | 96.7728 | 58.9950 | 2219 | 192 | 2219 | 74 | 70 | 94.5946 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 4.7170 | 2.5381 | 33.3333 | 92.1875 | 5 | 192 | 5 | 10 | 7 | 70.0000 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e1 | het | 82.0702 | 96.3526 | 71.4754 | 92.4111 | 5072 | 192 | 5019 | 2003 | 93 | 4.6430 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 68.4840 | 92.9334 | 54.2196 | 86.0939 | 2525 | 192 | 2602 | 2197 | 203 | 9.2399 | |
| ghariani-varprowl | SNP | ti | map_l100_m0_e0 | het | 97.4217 | 98.6269 | 96.2456 | 76.6277 | 13791 | 192 | 13792 | 538 | 130 | 24.1636 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 29.8082 | 20.6612 | 53.4884 | 75.0000 | 50 | 192 | 46 | 40 | 2 | 5.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.8167 | 88.7588 | 99.4859 | 30.0360 | 1516 | 192 | 1548 | 8 | 8 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.7119 | 72.4534 | 86.1538 | 53.4606 | 505 | 192 | 504 | 81 | 80 | 98.7654 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1835 | 98.9169 | 97.4610 | 70.8771 | 17626 | 193 | 17235 | 449 | 399 | 88.8641 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e0 | * | 60.2392 | 62.8131 | 57.8680 | 90.6723 | 326 | 193 | 342 | 249 | 156 | 62.6506 | |
| jlack-gatk | SNP | * | map_l150_m2_e0 | homalt | 99.0914 | 98.3503 | 99.8438 | 71.6709 | 11506 | 193 | 11506 | 18 | 13 | 72.2222 | |
| jlack-gatk | SNP | tv | * | homalt | 99.9678 | 99.9488 | 99.9867 | 20.1040 | 376930 | 193 | 376912 | 50 | 30 | 60.0000 | |
| hfeng-pmm3 | SNP | * | map_l100_m0_e0 | * | 99.4850 | 99.4123 | 99.5578 | 68.0774 | 32648 | 193 | 32644 | 145 | 21 | 14.4828 | |
| hfeng-pmm1 | SNP | * | map_l125_m0_e0 | * | 99.1962 | 99.0044 | 99.3888 | 74.3664 | 19192 | 193 | 19189 | 118 | 33 | 27.9661 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 56.0364 | 0.0000 | 0.0000 | 246 | 193 | 0 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.2925 | 97.1972 | 99.4127 | 32.2154 | 6693 | 193 | 6771 | 40 | 40 | 100.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8278 | 98.3293 | 99.3313 | 69.2512 | 11359 | 193 | 11290 | 76 | 45 | 59.2105 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8278 | 98.3293 | 99.3313 | 69.2512 | 11359 | 193 | 11290 | 76 | 45 | 59.2105 | |
| ciseli-custom | SNP | ti | segdup | het | 96.4948 | 98.3957 | 94.6659 | 91.6122 | 11837 | 193 | 11802 | 665 | 19 | 2.8571 | |
| gduggal-bwafb | SNP | * | map_l250_m1_e0 | * | 97.6861 | 97.3276 | 98.0471 | 89.3479 | 7029 | 193 | 7029 | 140 | 38 | 27.1429 | |
| gduggal-bwafb | SNP | tv | map_siren | het | 98.7335 | 99.3254 | 98.1487 | 63.6405 | 28416 | 193 | 28416 | 536 | 69 | 12.8731 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.9686 | 72.3099 | 97.3129 | 50.8954 | 504 | 193 | 507 | 14 | 13 | 92.8571 | |
| gduggal-snapplat | INDEL | D6_15 | map_l100_m1_e0 | * | 38.7543 | 25.1938 | 83.9286 | 94.2915 | 65 | 193 | 47 | 9 | 1 | 11.1111 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 18.4615 | 11.0599 | 55.8140 | 75.1445 | 24 | 193 | 24 | 19 | 14 | 73.6842 | |
| gduggal-snapfb | SNP | tv | map_l150_m2_e0 | homalt | 97.2621 | 95.2731 | 99.3359 | 82.3744 | 3890 | 193 | 3889 | 26 | 6 | 23.0769 | |
| gduggal-snapfb | SNP | tv | map_l150_m2_e1 | homalt | 97.2966 | 95.3314 | 99.3444 | 82.3553 | 3941 | 193 | 3940 | 26 | 6 | 23.0769 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 3.9487 | 2.0305 | 71.4286 | 91.6667 | 4 | 193 | 5 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 66.9521 | 0.0000 | 0.0000 | 391 | 193 | 0 | 0 | 0 | ||
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | het | 99.1441 | 98.9434 | 99.3457 | 70.2153 | 18073 | 193 | 18069 | 119 | 74 | 62.1849 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5751 | 94.4731 | 98.7728 | 51.8310 | 3299 | 193 | 3300 | 41 | 34 | 82.9268 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.4861 | 73.7415 | 86.2013 | 48.1481 | 542 | 193 | 531 | 85 | 81 | 95.2941 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4966 | 99.3171 | 99.6769 | 61.8156 | 28067 | 193 | 28070 | 91 | 68 | 74.7253 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9829 | 96.4509 | 99.5644 | 27.1624 | 5245 | 193 | 5257 | 23 | 22 | 95.6522 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | het | 60.5332 | 77.1765 | 49.7948 | 74.1605 | 656 | 194 | 728 | 734 | 607 | 82.6975 | |