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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25501-25550 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | * | segdup | het | 98.4496 | 98.0539 | 98.8484 | 95.2313 | 16980 | 337 | 16996 | 198 | 12 | 6.0606 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1964 | 99.5470 | 98.8483 | 74.0177 | 14505 | 66 | 14505 | 169 | 12 | 7.1006 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1964 | 99.5470 | 98.8483 | 74.0177 | 14505 | 66 | 14505 | 169 | 12 | 7.1006 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | * | het | 97.5719 | 96.3280 | 98.8483 | 63.0112 | 3043 | 116 | 3004 | 35 | 15 | 42.8571 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3018 | 99.7594 | 98.8483 | 62.1581 | 2488 | 6 | 2489 | 29 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | map_l100_m0_e0 | * | 70.1414 | 54.3558 | 98.8482 | 87.4638 | 17851 | 14990 | 17850 | 208 | 2 | 0.9615 | |
| hfeng-pmm2 | INDEL | D6_15 | * | het | 98.1073 | 97.3775 | 98.8481 | 59.1502 | 11288 | 304 | 11242 | 131 | 113 | 86.2595 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 76.0030 | 61.7352 | 98.8481 | 36.6332 | 1352 | 838 | 1373 | 16 | 16 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | * | hetalt | 77.5745 | 63.8360 | 98.8480 | 70.3665 | 6540 | 3705 | 6178 | 72 | 64 | 88.8889 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | * | 98.7342 | 98.6207 | 98.8479 | 87.4221 | 858 | 12 | 858 | 10 | 2 | 20.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.2021 | 97.5649 | 98.8477 | 61.4163 | 1202 | 30 | 1201 | 14 | 12 | 85.7143 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.6114 | 90.7236 | 98.8475 | 35.5050 | 1467 | 150 | 1458 | 17 | 17 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0835 | 99.3208 | 98.8474 | 56.8151 | 11406 | 78 | 11406 | 133 | 125 | 93.9850 | |
| ckim-vqsr | INDEL | D1_5 | segdup | het | 98.9178 | 98.9884 | 98.8473 | 96.6564 | 685 | 7 | 686 | 8 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.4548 | 98.0660 | 98.8468 | 71.0240 | 5020 | 99 | 5057 | 59 | 13 | 22.0339 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | * | 64.3231 | 47.6728 | 98.8465 | 91.2321 | 6084 | 6678 | 6084 | 71 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.4539 | 98.0645 | 98.8464 | 84.0977 | 1368 | 27 | 1371 | 16 | 8 | 50.0000 | |
| gduggal-snapvard | SNP | tv | HG002complexvar | * | 97.7872 | 96.7504 | 98.8464 | 23.7234 | 238156 | 7999 | 233057 | 2720 | 1012 | 37.2059 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.6709 | 98.4962 | 98.8462 | 81.0219 | 262 | 4 | 257 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.5635 | 98.2824 | 98.8462 | 65.4025 | 515 | 9 | 514 | 6 | 5 | 83.3333 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.2278 | 99.6124 | 98.8462 | 83.9208 | 257 | 1 | 257 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5356 | 98.2273 | 98.8458 | 72.2319 | 942 | 17 | 942 | 11 | 9 | 81.8182 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.1189 | 97.4026 | 98.8458 | 61.2336 | 1200 | 32 | 1199 | 14 | 12 | 85.7143 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.3812 | 97.9211 | 98.8456 | 82.2966 | 1366 | 29 | 1370 | 16 | 2 | 12.5000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.0652 | 97.2973 | 98.8453 | 75.9711 | 432 | 12 | 428 | 5 | 1 | 20.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.2532 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.5726 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | homalt | 99.1629 | 99.4832 | 98.8447 | 86.8279 | 770 | 4 | 770 | 9 | 4 | 44.4444 | |
| mlin-fermikit | SNP | * | map_siren | het | 82.6394 | 70.9993 | 98.8447 | 48.1176 | 64603 | 26388 | 64595 | 755 | 18 | 2.3841 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2133 | 99.5848 | 98.8446 | 73.6714 | 33098 | 138 | 33109 | 387 | 353 | 91.2145 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.4617 | 94.1911 | 98.8445 | 26.3329 | 6486 | 400 | 6501 | 76 | 73 | 96.0526 | |
| eyeh-varpipe | SNP | tv | * | hetalt | 99.3621 | 99.8852 | 98.8445 | 45.4641 | 870 | 1 | 4106 | 48 | 46 | 95.8333 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 91.6751 | 85.4753 | 98.8445 | 42.9599 | 6132 | 1042 | 941 | 11 | 11 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.9843 | 91.4144 | 98.8444 | 52.1785 | 2204 | 207 | 2224 | 26 | 17 | 65.3846 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_siren | het | 98.6092 | 98.3751 | 98.8444 | 74.6336 | 2240 | 37 | 2224 | 26 | 1 | 3.8462 | |
| gduggal-bwafb | SNP | ti | map_l125_m0_e0 | * | 98.6735 | 98.5034 | 98.8442 | 76.2289 | 12571 | 191 | 12571 | 147 | 47 | 31.9728 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1094 | 95.4346 | 98.8440 | 49.6543 | 14110 | 675 | 14108 | 165 | 157 | 95.1515 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m0_e0 | * | 97.7044 | 96.5909 | 98.8439 | 91.2714 | 170 | 6 | 171 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7710 | 98.6981 | 98.8439 | 73.8011 | 1592 | 21 | 1539 | 18 | 13 | 72.2222 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | het | 99.4186 | 100.0000 | 98.8439 | 78.6420 | 4 | 0 | 171 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1487 | 97.4632 | 98.8439 | 76.5004 | 1921 | 50 | 1881 | 22 | 11 | 50.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1487 | 97.4632 | 98.8439 | 76.5004 | 1921 | 50 | 1881 | 22 | 11 | 50.0000 | |
| 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 | |
| ghariani-varprowl | SNP | tv | HG002complexvar | homalt | 99.3856 | 99.9338 | 98.8434 | 25.4168 | 95048 | 63 | 95121 | 1113 | 736 | 66.1276 | |
| gduggal-bwafb | INDEL | I1_5 | map_siren | * | 97.6773 | 96.5391 | 98.8428 | 79.9276 | 2901 | 104 | 2904 | 34 | 18 | 52.9412 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | het | 81.4281 | 69.2308 | 98.8426 | 88.6749 | 13068 | 5808 | 13066 | 153 | 3 | 1.9608 | |
| asubramanian-gatk | INDEL | D1_5 | segdup | het | 98.6259 | 98.4104 | 98.8423 | 95.7351 | 681 | 11 | 683 | 8 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5836 | 98.3269 | 98.8417 | 84.3252 | 764 | 13 | 768 | 9 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0329 | 99.2248 | 98.8417 | 84.1880 | 256 | 2 | 256 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | homalt | 86.1563 | 76.3566 | 98.8417 | 82.7793 | 197 | 61 | 256 | 3 | 3 | 100.0000 | |