PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7901-7950 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2676 | 97.9992 | 98.5375 | 41.6126 | 24049 | 491 | 24053 | 357 | 339 | 94.9580 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 92.1861 | 94.9340 | 89.5928 | 65.6359 | 9201 | 491 | 9857 | 1145 | 571 | 49.8690 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | het | 76.8817 | 88.8434 | 67.7587 | 83.1340 | 3910 | 491 | 3909 | 1860 | 528 | 28.3871 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.8385 | 93.1558 | 98.6804 | 28.6536 | 6683 | 491 | 6730 | 90 | 87 | 96.6667 | |
| asubramanian-gatk | SNP | * | HG002compoundhet | het | 97.7049 | 96.5369 | 98.9015 | 46.6042 | 13687 | 491 | 13685 | 152 | 23 | 15.1316 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 491 | 0 | 0 | 0 | |||
| jmaeng-gatk | SNP | tv | map_l250_m1_e0 | homalt | 59.8528 | 42.7570 | 99.7275 | 93.2050 | 366 | 490 | 366 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D6_15 | * | * | 98.6381 | 98.1220 | 99.1595 | 51.2932 | 25602 | 490 | 25602 | 217 | 202 | 93.0876 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1659 | 93.1102 | 99.4290 | 31.4906 | 6622 | 490 | 6617 | 38 | 38 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | homalt | 97.6436 | 95.6533 | 99.7185 | 71.0895 | 10783 | 490 | 10627 | 30 | 24 | 80.0000 | |
| hfeng-pmm3 | SNP | tv | HG002compoundhet | het | 94.3711 | 89.5142 | 99.7852 | 53.0848 | 4183 | 490 | 4181 | 9 | 2 | 22.2222 | |
| egarrison-hhga | SNP | * | map_l100_m2_e1 | het | 99.3694 | 98.9552 | 99.7871 | 65.4429 | 46408 | 490 | 46409 | 99 | 31 | 31.3131 | |
| ckim-dragen | SNP | tv | * | * | 99.8136 | 99.9495 | 99.6782 | 25.0811 | 969200 | 490 | 969499 | 3130 | 164 | 5.2396 | |
| anovak-vg | SNP | ti | * | hetalt | 0.0000 | 15.8076 | 0.0000 | 0.0000 | 92 | 490 | 0 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | HG002complexvar | * | 99.1616 | 98.5022 | 99.8299 | 57.5831 | 32225 | 490 | 32276 | 55 | 41 | 74.5455 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6737 | 94.1848 | 99.2978 | 59.9146 | 7920 | 489 | 7919 | 56 | 51 | 91.0714 | |
| egarrison-hhga | SNP | * | map_l100_m2_e0 | het | 99.3648 | 98.9461 | 99.7870 | 65.4283 | 45910 | 489 | 45911 | 98 | 31 | 31.6327 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e1 | * | 98.6004 | 99.0118 | 98.1924 | 70.8832 | 48996 | 489 | 48998 | 902 | 186 | 20.6208 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | * | 99.8888 | 99.9038 | 99.8738 | 17.3355 | 507948 | 489 | 484239 | 612 | 191 | 31.2092 | |
| ndellapenna-hhga | SNP | * | HG002compoundhet | het | 98.0271 | 96.5510 | 99.5491 | 42.9549 | 13689 | 489 | 13687 | 62 | 36 | 58.0645 | |
| gduggal-snapplat | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 488 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 22.8209 | 19.0713 | 28.4058 | 74.7623 | 115 | 488 | 98 | 247 | 3 | 1.2146 | |
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 488 | 0 | 0 | 0 | |||
| gduggal-snapfb | SNP | * | map_l125_m0_e0 | het | 95.0102 | 96.1466 | 93.9004 | 73.7575 | 12176 | 488 | 12177 | 791 | 378 | 47.7876 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3579 | 95.2232 | 99.5905 | 58.8743 | 9728 | 488 | 9729 | 40 | 39 | 97.5000 | |
| jli-custom | INDEL | D1_5 | * | hetalt | 97.3277 | 95.2367 | 99.5126 | 64.3126 | 9757 | 488 | 9801 | 48 | 46 | 95.8333 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 24.4217 | 20.7792 | 29.6128 | 67.8388 | 128 | 488 | 130 | 309 | 308 | 99.6764 | |
| gduggal-bwavard | SNP | * | map_l125_m0_e0 | * | 93.5292 | 97.4826 | 89.8840 | 82.4074 | 18897 | 488 | 18668 | 2101 | 98 | 4.6645 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 69.9400 | 54.1784 | 98.6348 | 79.3006 | 577 | 488 | 578 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | I1_5 | map_l100_m2_e0 | het | 48.1704 | 38.4615 | 64.4359 | 89.9093 | 305 | 488 | 337 | 186 | 31 | 16.6667 | |
| ckim-gatk | SNP | tv | map_l250_m1_e0 | homalt | 60.1307 | 42.9907 | 100.0000 | 93.6519 | 368 | 488 | 368 | 0 | 0 | ||
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.2933 | 93.2116 | 99.5857 | 27.6338 | 6687 | 487 | 6731 | 28 | 28 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1068 | 94.7612 | 99.5714 | 64.0076 | 8809 | 487 | 8828 | 38 | 38 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.2162 | 86.6135 | 98.5938 | 42.4667 | 3151 | 487 | 3155 | 45 | 26 | 57.7778 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e0 | * | 98.5956 | 99.0053 | 98.1892 | 70.8668 | 48474 | 487 | 48476 | 894 | 185 | 20.6935 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 56.3707 | 87.9455 | 41.4787 | 65.8135 | 3553 | 487 | 3568 | 5034 | 4915 | 97.6361 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1552 | 98.5347 | 99.7836 | 72.0617 | 32749 | 487 | 32742 | 71 | 45 | 63.3803 | |
| jli-custom | INDEL | * | HG002complexvar | hetalt | 92.1678 | 86.8343 | 98.1995 | 67.3509 | 3212 | 487 | 3436 | 63 | 62 | 98.4127 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 75.7194 | 61.1022 | 99.5294 | 32.2169 | 765 | 487 | 846 | 4 | 3 | 75.0000 | |
| anovak-vg | SNP | ti | HG002compoundhet | hetalt | 0.0000 | 15.8895 | 0.0000 | 0.0000 | 92 | 487 | 0 | 0 | 0 | ||
| jpowers-varprowl | SNP | tv | map_l125_m2_e0 | * | 97.1791 | 97.0465 | 97.3121 | 78.1370 | 16002 | 487 | 16002 | 442 | 119 | 26.9231 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.1071 | 96.8411 | 99.4065 | 70.7611 | 14930 | 487 | 15409 | 92 | 91 | 98.9130 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 83.1268 | 71.4871 | 99.2941 | 36.3772 | 1221 | 487 | 422 | 3 | 3 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.7858 | 98.2767 | 99.3002 | 57.2345 | 27773 | 487 | 27812 | 196 | 123 | 62.7551 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 48.2628 | 55.3309 | 42.7960 | 40.3404 | 602 | 486 | 600 | 802 | 781 | 97.3815 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 51.9508 | 35.3723 | 97.7778 | 57.1429 | 266 | 486 | 264 | 6 | 5 | 83.3333 | |
| ghariani-varprowl | SNP | * | * | homalt | 99.7891 | 99.9588 | 99.6200 | 19.7823 | 1179670 | 486 | 1179792 | 4500 | 2208 | 49.0667 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.8163 | 0.4098 | 100.0000 | 90.4762 | 2 | 486 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1124 | 94.7719 | 99.5714 | 64.0050 | 8810 | 486 | 8829 | 38 | 38 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 51.2986 | 77.9991 | 38.2164 | 61.6156 | 1723 | 486 | 1727 | 2792 | 2527 | 90.5086 | |