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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73801-73850 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I6_15 | segdup | * | 72.0984 | 66.8571 | 78.2313 | 93.2039 | 117 | 58 | 115 | 32 | 32 | 100.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.8162 | 99.9112 | 97.7450 | 61.5346 | 2250 | 2 | 2254 | 52 | 32 | 61.5385 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.2390 | 100.0000 | 96.5390 | 41.8664 | 1311 | 0 | 1311 | 47 | 32 | 68.0851 | |
| ghariani-varprowl | SNP | tv | map_l250_m1_e0 | * | 94.3742 | 97.2799 | 91.6370 | 91.1799 | 2575 | 72 | 2575 | 235 | 32 | 13.6170 | |
| ghariani-varprowl | SNP | tv | segdup | * | 97.0800 | 99.5077 | 94.7680 | 93.4258 | 8490 | 42 | 8495 | 469 | 32 | 6.8230 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.7243 | 96.3506 | 97.1009 | 69.6907 | 2561 | 97 | 2579 | 77 | 32 | 41.5584 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.4354 | 97.2868 | 89.8773 | 59.4527 | 251 | 7 | 293 | 33 | 32 | 96.9697 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 42.3430 | 32.4324 | 60.9756 | 37.4046 | 12 | 25 | 50 | 32 | 32 | 100.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.3412 | 97.9740 | 96.7165 | 46.4205 | 3385 | 70 | 2975 | 101 | 32 | 31.6832 | |
| eyeh-varpipe | SNP | ti | map_l100_m1_e0 | * | 99.3616 | 99.7163 | 99.0095 | 67.2794 | 47795 | 136 | 46883 | 469 | 32 | 6.8230 | |
| eyeh-varpipe | SNP | ti | map_l100_m2_e0 | * | 99.3504 | 99.7181 | 98.9854 | 68.9913 | 48823 | 138 | 47903 | 491 | 32 | 6.5173 | |
| eyeh-varpipe | SNP | ti | map_l100_m2_e1 | * | 99.3531 | 99.7211 | 98.9878 | 69.0049 | 49347 | 138 | 48410 | 495 | 32 | 6.4647 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | homalt | 96.9051 | 99.4687 | 94.4704 | 53.4614 | 3370 | 18 | 1213 | 71 | 32 | 45.0704 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.3685 | 99.0609 | 93.8186 | 66.4004 | 3059 | 29 | 2565 | 169 | 32 | 18.9349 | |
| gduggal-bwavard | INDEL | C6_15 | * | * | 79.7527 | 100.0000 | 66.3239 | 94.4109 | 7 | 0 | 258 | 131 | 32 | 24.4275 | |
| gduggal-bwavard | INDEL | C6_15 | HG002complexvar | * | 87.4786 | 100.0000 | 77.7439 | 86.1311 | 4 | 0 | 255 | 73 | 32 | 43.8356 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 67.5892 | 52.9680 | 93.3602 | 88.9531 | 464 | 412 | 464 | 33 | 32 | 96.9697 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.9324 | 70.9821 | 96.8774 | 72.2175 | 1272 | 520 | 1272 | 41 | 32 | 78.0488 | |
| gduggal-bwavard | SNP | * | map_l250_m1_e0 | het | 86.5001 | 97.8128 | 77.5328 | 92.6635 | 4651 | 104 | 4607 | 1335 | 32 | 2.3970 | |
| gduggal-bwavard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.8459 | 95.8744 | 91.9015 | 78.3452 | 3114 | 134 | 3098 | 273 | 32 | 11.7216 | |
| gduggal-snapfb | INDEL | * | map_siren | homalt | 96.2019 | 94.8776 | 97.5638 | 84.0656 | 2519 | 136 | 2523 | 63 | 32 | 50.7937 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 81.7356 | 74.1096 | 91.1111 | 54.0230 | 1623 | 567 | 328 | 32 | 32 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.6947 | 87.3874 | 94.2623 | 81.0323 | 582 | 84 | 575 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.6947 | 87.3874 | 94.2623 | 81.0323 | 582 | 84 | 575 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.4850 | 97.5225 | 97.4474 | 70.6155 | 1299 | 33 | 1298 | 34 | 32 | 94.1176 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4301 | 97.2854 | 97.5753 | 76.8498 | 1326 | 37 | 1328 | 33 | 32 | 96.9697 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | het | 99.5408 | 99.3864 | 99.6957 | 45.1283 | 14091 | 87 | 14087 | 43 | 32 | 74.4186 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e0 | homalt | 99.3437 | 98.9743 | 99.7158 | 73.6127 | 11579 | 120 | 11579 | 33 | 32 | 96.9697 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | homalt | 99.3508 | 98.9854 | 99.7189 | 73.6505 | 11707 | 120 | 11707 | 33 | 32 | 96.9697 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.5554 | 99.5199 | 99.5910 | 69.5435 | 19485 | 94 | 19481 | 80 | 32 | 40.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.5554 | 99.5199 | 99.5910 | 69.5435 | 19485 | 94 | 19481 | 80 | 32 | 40.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.8453 | 92.6241 | 97.1756 | 71.4036 | 1306 | 104 | 1273 | 37 | 32 | 86.4865 | |
| rpoplin-dv42 | SNP | tv | map_l250_m2_e1 | * | 97.9690 | 97.5995 | 98.3414 | 87.6309 | 2846 | 70 | 2846 | 48 | 32 | 66.6667 | |
| raldana-dualsentieon | SNP | ti | * | homalt | 99.9899 | 99.9839 | 99.9959 | 15.7711 | 802909 | 129 | 802901 | 33 | 32 | 96.9697 | |
| ckim-isaac | SNP | ti | * | homalt | 98.4855 | 97.0214 | 99.9944 | 13.4256 | 779120 | 23919 | 779153 | 44 | 32 | 72.7273 | |
| ckim-isaac | SNP | tv | * | het | 98.4858 | 97.0571 | 99.9572 | 19.2906 | 574291 | 17413 | 574576 | 246 | 32 | 13.0081 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | het | 88.9628 | 83.8302 | 94.7650 | 61.7021 | 928 | 179 | 887 | 49 | 32 | 65.3061 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.2513 | 95.6140 | 94.8913 | 62.4643 | 872 | 40 | 873 | 47 | 32 | 68.0851 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.3685 | 96.3964 | 92.4242 | 70.2894 | 428 | 16 | 427 | 35 | 32 | 91.4286 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9811 | 96.5062 | 99.5018 | 33.8856 | 6574 | 238 | 6591 | 33 | 32 | 96.9697 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1156 | 95.4467 | 98.8438 | 53.2567 | 3333 | 159 | 3334 | 39 | 32 | 82.0513 | |
| dgrover-gatk | SNP | ti | HG002complexvar | het | 99.9452 | 99.9164 | 99.9739 | 17.0118 | 314503 | 263 | 314449 | 82 | 32 | 39.0244 | |
| dgrover-gatk | SNP | tv | HG002complexvar | * | 99.9486 | 99.9236 | 99.9736 | 22.0729 | 245964 | 188 | 245873 | 65 | 32 | 49.2308 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7063 | 95.9630 | 99.5141 | 33.0555 | 6537 | 275 | 6554 | 32 | 32 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2766 | 99.2360 | 97.3356 | 73.4116 | 1169 | 9 | 1169 | 32 | 32 | 100.0000 | |
| ckim-vqsr | SNP | * | HG002complexvar | het | 99.0965 | 98.2281 | 99.9803 | 19.3098 | 457249 | 8248 | 457124 | 90 | 32 | 35.5556 | |
| ckim-vqsr | SNP | * | HG002compoundhet | * | 98.9056 | 97.9940 | 99.8343 | 41.9777 | 25304 | 518 | 25301 | 42 | 32 | 76.1905 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6351 | 98.0293 | 99.2485 | 64.1671 | 9501 | 191 | 9509 | 72 | 32 | 44.4444 | |