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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67151-67200 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | ti | map_l250_m2_e1 | het | 97.5433 | 98.0903 | 97.0024 | 89.5913 | 3236 | 63 | 3236 | 100 | 2 | 2.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.5858 | 77.4194 | 98.2143 | 59.5668 | 216 | 63 | 220 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.0384 | 95.2632 | 92.8447 | 81.0891 | 1267 | 63 | 1064 | 82 | 76 | 92.6829 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 97.3563 | 94.8487 | 100.0000 | 56.1679 | 1160 | 63 | 1201 | 0 | 0 | ||
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7964 | 99.6289 | 99.9645 | 66.6982 | 16912 | 63 | 16912 | 6 | 5 | 83.3333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7964 | 99.6289 | 99.9645 | 66.6982 | 16912 | 63 | 16912 | 6 | 5 | 83.3333 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.7394 | 94.9841 | 92.5270 | 73.6767 | 1193 | 63 | 1201 | 97 | 62 | 63.9175 | |
| ckim-isaac | INDEL | D16_PLUS | map_siren | het | 29.1262 | 19.2308 | 60.0000 | 92.2840 | 15 | 63 | 15 | 10 | 5 | 50.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6415 | 99.4695 | 99.8142 | 51.5034 | 11812 | 63 | 11817 | 22 | 15 | 68.1818 | |
| ckim-vqsr | SNP | tv | HG002compoundhet | het | 99.1184 | 98.6518 | 99.5894 | 55.9836 | 4610 | 63 | 4608 | 19 | 12 | 63.1579 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | het | 93.5069 | 98.4612 | 89.0273 | 79.7555 | 4031 | 63 | 3789 | 467 | 459 | 98.2869 | |
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | het | 99.8048 | 99.6966 | 99.9132 | 56.2931 | 20702 | 63 | 20710 | 18 | 11 | 61.1111 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8289 | 99.1468 | 98.5131 | 59.7388 | 7321 | 63 | 7288 | 110 | 106 | 96.3636 | |
| dgrover-gatk | INDEL | D6_15 | * | het | 98.8856 | 99.4565 | 98.3212 | 62.9800 | 11529 | 63 | 11479 | 196 | 167 | 85.2041 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.7019 | 85.8108 | 98.4615 | 77.2063 | 381 | 63 | 384 | 6 | 5 | 83.3333 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | het | 95.6747 | 95.2060 | 96.1480 | 92.4743 | 1271 | 64 | 1273 | 51 | 5 | 9.8039 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.7052 | 90.8178 | 98.9404 | 37.4482 | 633 | 64 | 747 | 8 | 8 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2919 | 94.3909 | 98.2712 | 79.8126 | 1077 | 64 | 1080 | 19 | 17 | 89.4737 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5233 | 99.0511 | 100.0000 | 35.2554 | 6681 | 64 | 6681 | 0 | 0 | ||
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4073 | 99.5608 | 99.2542 | 75.3973 | 14507 | 64 | 14507 | 109 | 12 | 11.0092 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4073 | 99.5608 | 99.2542 | 75.3973 | 14507 | 64 | 14507 | 109 | 12 | 11.0092 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 82.7930 | 72.1739 | 97.0760 | 60.0467 | 166 | 64 | 166 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 93.3176 | 88.2784 | 98.9669 | 69.3477 | 482 | 64 | 479 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l125_m1_e0 | * | 61.6279 | 45.2991 | 96.3636 | 90.1434 | 53 | 64 | 53 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | HG002compoundhet | het | 32.8633 | 69.2308 | 21.5453 | 64.8197 | 144 | 64 | 145 | 528 | 493 | 93.3712 | |
| egarrison-hhga | SNP | * | HG002compoundhet | homalt | 99.2639 | 99.4064 | 99.1218 | 35.3785 | 10718 | 64 | 10722 | 95 | 82 | 86.3158 | |
| egarrison-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.2365 | 97.8780 | 98.5977 | 69.1078 | 2952 | 64 | 2953 | 42 | 11 | 26.1905 | |
| egarrison-hhga | SNP | * | map_l100_m1_e0 | homalt | 99.8480 | 99.7630 | 99.9332 | 60.8894 | 26939 | 64 | 26939 | 18 | 17 | 94.4444 | |
| egarrison-hhga | SNP | * | map_l100_m2_e0 | homalt | 99.8491 | 99.7675 | 99.9309 | 63.4300 | 27459 | 64 | 27459 | 19 | 18 | 94.7368 | |
| egarrison-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.8506 | 99.7698 | 99.9315 | 63.4220 | 27732 | 64 | 27732 | 19 | 18 | 94.7368 | |
| eyeh-varpipe | INDEL | * | segdup | het | 96.4604 | 95.6344 | 97.3009 | 93.4137 | 1402 | 64 | 1478 | 41 | 31 | 75.6098 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.5277 | 86.8852 | 90.2335 | 62.7373 | 424 | 64 | 425 | 46 | 39 | 84.7826 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 93.8354 | 92.2330 | 95.4944 | 66.5970 | 760 | 64 | 763 | 36 | 33 | 91.6667 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002complexvar | het | 98.5457 | 97.9487 | 99.1499 | 50.4465 | 3056 | 64 | 2916 | 25 | 8 | 32.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3471 | 97.3466 | 99.3684 | 59.4294 | 2348 | 64 | 2360 | 15 | 9 | 60.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.0720 | 97.0065 | 97.1375 | 69.1696 | 2074 | 64 | 2070 | 61 | 54 | 88.5246 | |
| mlin-fermikit | INDEL | * | segdup | het | 95.7622 | 95.6344 | 95.8904 | 92.0914 | 1402 | 64 | 1400 | 60 | 46 | 76.6667 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.8514 | 93.2059 | 90.5357 | 48.9295 | 878 | 64 | 4276 | 447 | 379 | 84.7875 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 60.2317 | 54.9296 | 66.6667 | 46.3303 | 78 | 64 | 78 | 39 | 38 | 97.4359 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.3441 | 90.1387 | 94.6602 | 59.6342 | 585 | 64 | 585 | 33 | 29 | 87.8788 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6651 | 96.2419 | 97.0920 | 67.8312 | 1639 | 64 | 1636 | 49 | 13 | 26.5306 | |
| ndellapenna-hhga | SNP | * | HG002compoundhet | homalt | 98.7381 | 99.4064 | 98.0787 | 35.7852 | 10718 | 64 | 10720 | 210 | 197 | 93.8095 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 79.5890 | 75.9398 | 83.6066 | 81.9793 | 202 | 64 | 204 | 40 | 39 | 97.5000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 89.8707 | 91.9395 | 87.8929 | 91.5916 | 730 | 64 | 755 | 104 | 4 | 3.8462 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6877 | 98.2028 | 99.1775 | 66.2939 | 3497 | 64 | 3497 | 29 | 23 | 79.3103 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.6502 | 96.4816 | 96.8193 | 81.9352 | 1755 | 64 | 1522 | 50 | 37 | 74.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.6502 | 96.4816 | 96.8193 | 81.9352 | 1755 | 64 | 1522 | 50 | 37 | 74.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m1_e0 | het | 97.0745 | 94.7064 | 99.5641 | 73.0054 | 1145 | 64 | 1142 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.6197 | 83.5052 | 99.0596 | 65.6620 | 324 | 64 | 316 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 49.3231 | 87.8558 | 34.2857 | 65.7723 | 463 | 64 | 468 | 897 | 893 | 99.5541 | |