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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57451-57500 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.8869 | 95.0176 | 94.7566 | 72.8903 | 4596 | 241 | 4554 | 252 | 104 | 41.2698 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | het | 94.6619 | 95.0192 | 94.3074 | 93.7699 | 496 | 26 | 497 | 30 | 3 | 10.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.4075 | 95.0192 | 91.8496 | 49.4485 | 10912 | 572 | 13850 | 1229 | 1043 | 84.8657 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | * | 86.1545 | 95.0207 | 78.8017 | 91.2590 | 4351 | 228 | 4327 | 1164 | 68 | 5.8419 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m1_e0 | het | 93.7564 | 95.0207 | 92.5253 | 90.0901 | 458 | 24 | 458 | 37 | 19 | 51.3514 | |
| gduggal-snapplat | SNP | * | map_siren | homalt | 97.4154 | 95.0214 | 99.9332 | 54.3867 | 52410 | 2746 | 52361 | 35 | 23 | 65.7143 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002compoundhet | hetalt | 97.3702 | 95.0217 | 99.8378 | 29.8617 | 8112 | 425 | 8001 | 13 | 12 | 92.3077 | |
| astatham-gatk | INDEL | D1_5 | * | hetalt | 97.2343 | 95.0220 | 99.5520 | 63.2355 | 9735 | 510 | 9778 | 44 | 43 | 97.7273 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 96.9977 | 95.0226 | 99.0566 | 91.2215 | 210 | 11 | 210 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3346 | 95.0228 | 99.7616 | 43.5987 | 2081 | 109 | 2092 | 5 | 4 | 80.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m0_e0 | het | 97.3350 | 95.0239 | 99.7613 | 54.4961 | 4182 | 219 | 4180 | 10 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2837 | 95.0257 | 99.6516 | 66.3934 | 554 | 29 | 572 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4355 | 95.0263 | 99.9701 | 33.2469 | 9954 | 521 | 10036 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e0 | * | 95.5047 | 95.0280 | 95.9863 | 91.4473 | 4759 | 249 | 4759 | 199 | 57 | 28.6432 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.4506 | 95.0280 | 100.0000 | 56.4672 | 1529 | 80 | 1528 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | map_l100_m1_e0 | homalt | 96.6439 | 95.0285 | 98.3151 | 86.5465 | 1166 | 61 | 1167 | 20 | 12 | 60.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | hetalt | 97.3347 | 95.0298 | 99.7542 | 44.1554 | 8126 | 425 | 8116 | 20 | 19 | 95.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | * | het | 72.3037 | 95.0301 | 58.3494 | 71.4553 | 3002 | 157 | 3026 | 2160 | 1899 | 87.9167 | |
| cchapple-custom | SNP | tv | map_l150_m0_e0 | homalt | 97.4517 | 95.0301 | 100.0000 | 73.1873 | 1262 | 66 | 1261 | 0 | 0 | ||
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.9709 | 95.0352 | 98.9871 | 50.1046 | 2833 | 148 | 2834 | 29 | 24 | 82.7586 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m2_e1 | * | 97.3857 | 95.0355 | 99.8552 | 81.2214 | 4824 | 252 | 4827 | 7 | 4 | 57.1429 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e1 | * | 95.5153 | 95.0355 | 96.0000 | 91.5044 | 4824 | 252 | 4824 | 201 | 59 | 29.3532 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.7489 | 95.0355 | 96.4732 | 75.4199 | 1340 | 70 | 1313 | 48 | 37 | 77.0833 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e0 | * | 91.5832 | 95.0364 | 88.3721 | 90.1236 | 2087 | 109 | 2090 | 275 | 74 | 26.9091 | |
| gduggal-bwavard | INDEL | I6_15 | * | het | 71.5920 | 95.0364 | 57.4257 | 53.1216 | 9535 | 498 | 9512 | 7052 | 6790 | 96.2847 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.3586 | 95.0374 | 99.7961 | 32.0399 | 2413 | 126 | 2447 | 5 | 5 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | het | 97.3776 | 95.0376 | 99.8358 | 65.4566 | 632 | 33 | 608 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.4426 | 95.0383 | 99.9718 | 29.9341 | 10554 | 551 | 10633 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | SNP | tv | map_l150_m0_e0 | het | 93.9990 | 95.0405 | 92.9800 | 87.0071 | 2702 | 141 | 2702 | 204 | 53 | 25.9804 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2540 | 95.0409 | 99.5726 | 63.0163 | 8835 | 461 | 8854 | 38 | 38 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.4574 | 95.0409 | 100.0000 | 63.3890 | 8835 | 461 | 8854 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | map_l250_m2_e0 | het | 95.8333 | 95.0413 | 96.6387 | 95.1009 | 115 | 6 | 115 | 4 | 2 | 50.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.4596 | 95.0450 | 100.0000 | 78.5906 | 422 | 22 | 398 | 0 | 0 | ||
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.0249 | 95.0450 | 97.0252 | 86.7656 | 422 | 22 | 424 | 13 | 9 | 69.2308 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.1091 | 95.0450 | 93.1915 | 72.5788 | 211 | 11 | 219 | 16 | 4 | 25.0000 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.2654 | 95.0470 | 99.5898 | 58.5927 | 9710 | 506 | 9711 | 40 | 39 | 97.5000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.4365 | 95.0488 | 99.9472 | 61.8862 | 5644 | 294 | 5679 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m0_e0 | het | 94.3489 | 95.0495 | 93.6585 | 92.6126 | 192 | 10 | 192 | 13 | 5 | 38.4615 | |
| rpoplin-dv42 | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.5224 | 95.0495 | 96.0000 | 93.4037 | 96 | 5 | 96 | 4 | 3 | 75.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2565 | 95.0509 | 97.4930 | 80.7300 | 653 | 34 | 700 | 18 | 13 | 72.2222 | |
| gduggal-snapfb | SNP | tv | map_l250_m1_e0 | * | 94.8003 | 95.0510 | 94.5509 | 89.8505 | 2516 | 131 | 2516 | 145 | 53 | 36.5517 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.8692 | 95.0543 | 59.0803 | 78.2168 | 27292 | 1420 | 27789 | 19247 | 483 | 2.5095 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.8692 | 95.0543 | 59.0803 | 78.2168 | 27292 | 1420 | 27789 | 19247 | 483 | 2.5095 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1938 | 95.0545 | 99.4316 | 25.2614 | 4536 | 236 | 4548 | 26 | 26 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4153 | 95.0558 | 97.8143 | 50.9442 | 14054 | 731 | 14052 | 314 | 309 | 98.4076 | |
| astatham-gatk | INDEL | * | map_l125_m2_e1 | * | 96.4891 | 95.0562 | 97.9658 | 89.1866 | 2115 | 110 | 2119 | 44 | 9 | 20.4545 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2893 | 95.0573 | 97.5536 | 44.7868 | 19578 | 1018 | 19579 | 491 | 468 | 95.3157 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 69.8918 | 95.0578 | 55.2616 | 86.6554 | 904 | 47 | 919 | 744 | 173 | 23.2527 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.8753 | 95.0578 | 85.2286 | 76.3056 | 904 | 47 | 727 | 126 | 44 | 34.9206 | |
| cchapple-custom | INDEL | I1_5 | HG002compoundhet | het | 97.1579 | 95.0588 | 99.3518 | 64.8409 | 808 | 42 | 13029 | 85 | 74 | 87.0588 | |