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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18301-18350 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0937 | 98.5254 | 99.6685 | 47.3225 | 1804 | 27 | 1804 | 6 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m2_e1 | homalt | 98.6957 | 97.7419 | 99.6683 | 80.5358 | 606 | 14 | 601 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m1_e0 | homalt | 98.6835 | 97.7180 | 99.6683 | 77.1071 | 1199 | 28 | 1202 | 4 | 2 | 50.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 79.1201 | 65.5963 | 99.6683 | 30.7692 | 572 | 300 | 601 | 2 | 0 | 0.0000 | |
| astatham-gatk | SNP | * | map_l250_m1_e0 | homalt | 98.6256 | 97.6045 | 99.6683 | 85.3151 | 2404 | 59 | 2404 | 8 | 7 | 87.5000 | |
| ckim-isaac | SNP | tv | map_l125_m1_e0 | * | 70.3696 | 54.3831 | 99.6682 | 71.7978 | 8710 | 7306 | 8712 | 29 | 9 | 31.0345 | |
| ndellapenna-hhga | SNP | * | map_l100_m0_e0 | het | 98.6808 | 97.7128 | 99.6681 | 67.9602 | 20720 | 485 | 20721 | 69 | 32 | 46.3768 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.7716 | 83.3333 | 99.6678 | 87.5130 | 600 | 120 | 600 | 2 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5449 | 91.7497 | 99.6677 | 68.0131 | 3592 | 323 | 3599 | 12 | 9 | 75.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m1_e0 | het | 98.6886 | 97.7286 | 99.6676 | 58.7142 | 9896 | 230 | 9895 | 33 | 5 | 15.1515 | |
| astatham-gatk | SNP | ti | map_l100_m0_e0 | het | 88.3269 | 79.3034 | 99.6674 | 77.0849 | 11089 | 2894 | 11086 | 37 | 16 | 43.2432 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2273 | 98.7916 | 99.6668 | 58.8530 | 34991 | 428 | 34997 | 117 | 50 | 42.7350 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e1 | homalt | 99.3355 | 99.0066 | 99.6667 | 86.2231 | 2691 | 27 | 2691 | 9 | 7 | 77.7778 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.2827 | 98.9017 | 99.6667 | 74.9583 | 3872 | 43 | 3887 | 13 | 6 | 46.1538 | |
| ckim-gatk | SNP | * | HG002complexvar | hetalt | 98.0328 | 96.4516 | 99.6667 | 39.8798 | 299 | 11 | 299 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | HG002complexvar | hetalt | 98.0328 | 96.4516 | 99.6667 | 39.8798 | 299 | 11 | 299 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | map_l150_m1_e0 | het | 75.2265 | 60.4123 | 99.6666 | 78.7514 | 7473 | 4897 | 7473 | 25 | 2 | 8.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4177 | 99.1702 | 99.6664 | 74.8848 | 5378 | 45 | 5377 | 18 | 12 | 66.6667 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4177 | 99.1702 | 99.6664 | 74.8848 | 5378 | 45 | 5377 | 18 | 12 | 66.6667 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4518 | 99.2381 | 99.6663 | 75.2850 | 5080 | 39 | 5078 | 17 | 10 | 58.8235 | |
| ckim-vqsr | INDEL | I1_5 | * | * | 99.3579 | 99.0515 | 99.6662 | 59.3791 | 149235 | 1429 | 149282 | 500 | 397 | 79.4000 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e0 | het | 99.0369 | 98.4154 | 99.6662 | 64.6823 | 15527 | 250 | 15527 | 52 | 17 | 32.6923 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 92.5771 | 86.4295 | 99.6662 | 81.9053 | 2089 | 328 | 2090 | 7 | 6 | 85.7143 | |
| hfeng-pmm2 | SNP | ti | map_l125_m0_e0 | homalt | 99.6883 | 99.7105 | 99.6661 | 69.9826 | 4478 | 13 | 4478 | 15 | 6 | 40.0000 | |
| ltrigg-rtg1 | INDEL | * | HG002compoundhet | hetalt | 95.2514 | 91.2113 | 99.6659 | 56.7239 | 22967 | 2213 | 22971 | 77 | 76 | 98.7013 | |
| ckim-isaac | SNP | * | map_l125_m0_e0 | het | 74.0171 | 58.8677 | 99.6658 | 78.7645 | 7455 | 5209 | 7455 | 25 | 3 | 12.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8198 | 99.9742 | 99.6658 | 59.2542 | 3877 | 1 | 3877 | 13 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | het | 77.2355 | 63.0466 | 99.6657 | 75.2911 | 18484 | 10834 | 18486 | 62 | 10 | 16.1290 | |
| egarrison-hhga | SNP | * | segdup | homalt | 99.7815 | 99.8976 | 99.6657 | 89.1087 | 10732 | 11 | 10732 | 36 | 36 | 100.0000 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e1 | homalt | 98.9483 | 98.2413 | 99.6655 | 76.3898 | 11619 | 208 | 11619 | 39 | 26 | 66.6667 | |
| ghariani-varprowl | SNP | * | map_l125_m2_e1 | homalt | 99.1110 | 98.5626 | 99.6655 | 70.0625 | 17280 | 252 | 17280 | 58 | 39 | 67.2414 | |
| cchapple-custom | INDEL | I1_5 | HG002complexvar | homalt | 99.5426 | 99.4200 | 99.6654 | 46.3203 | 13370 | 78 | 12809 | 43 | 42 | 97.6744 | |
| astatham-gatk | SNP | * | map_l125_m2_e1 | het | 85.8279 | 75.3644 | 99.6653 | 80.7852 | 22338 | 7302 | 22332 | 75 | 27 | 36.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | homalt | 99.5850 | 99.5050 | 99.6653 | 76.7645 | 1206 | 6 | 1191 | 4 | 2 | 50.0000 | |
| ndellapenna-hhga | SNP | tv | map_l150_m1_e0 | * | 98.9384 | 98.2221 | 99.6652 | 71.6791 | 10718 | 194 | 10718 | 36 | 17 | 47.2222 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5579 | 99.4508 | 99.6651 | 63.3945 | 11047 | 61 | 11012 | 37 | 16 | 43.2432 | |
| egarrison-hhga | SNP | tv | map_l150_m2_e0 | het | 99.0356 | 98.4142 | 99.6649 | 74.5802 | 7137 | 115 | 7137 | 24 | 9 | 37.5000 | |
| egarrison-hhga | SNP | tv | map_l150_m1_e0 | het | 99.0220 | 98.3876 | 99.6646 | 73.3388 | 6834 | 112 | 6834 | 23 | 9 | 39.1304 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | homalt | 98.0400 | 96.4677 | 99.6644 | 87.9687 | 2376 | 87 | 2376 | 8 | 4 | 50.0000 | |
| asubramanian-gatk | SNP | tv | map_l150_m1_e0 | het | 40.8243 | 25.6695 | 99.6644 | 95.4254 | 1783 | 5163 | 1782 | 6 | 1 | 16.6667 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0655 | 98.4745 | 99.6636 | 56.9081 | 19559 | 303 | 19552 | 66 | 47 | 71.2121 | |
| egarrison-hhga | SNP | * | map_l125_m0_e0 | het | 98.9341 | 98.2154 | 99.6635 | 75.5931 | 12438 | 226 | 12438 | 42 | 17 | 40.4762 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m0_e0 | het | 96.6478 | 93.8094 | 99.6633 | 58.3385 | 2667 | 176 | 2664 | 9 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m2_e0 | homalt | 98.6763 | 97.7087 | 99.6633 | 80.4154 | 597 | 14 | 592 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | het | 99.0340 | 98.4126 | 99.6632 | 64.7264 | 15685 | 253 | 15685 | 53 | 17 | 32.0755 | |
| ckim-isaac | SNP | * | map_l125_m1_e0 | het | 76.8418 | 62.5247 | 99.6632 | 73.8033 | 17752 | 10640 | 17754 | 60 | 10 | 16.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0975 | 98.5381 | 99.6632 | 66.5047 | 3842 | 57 | 3847 | 13 | 7 | 53.8462 | |
| rpoplin-dv42 | SNP | ti | map_l125_m0_e0 | homalt | 99.2059 | 98.7531 | 99.6629 | 68.6730 | 4435 | 56 | 4435 | 15 | 14 | 93.3333 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e0 | homalt | 99.3276 | 98.9948 | 99.6627 | 86.1668 | 2659 | 27 | 2659 | 9 | 7 | 77.7778 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5779 | 99.4932 | 99.6627 | 79.8505 | 589 | 3 | 591 | 2 | 2 | 100.0000 | |