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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52851-52900 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | * | map_l100_m2_e0 | homalt | 99.6137 | 99.3169 | 99.9123 | 60.3292 | 27335 | 188 | 27335 | 24 | 19 | 79.1667 | |
| ckim-vqsr | INDEL | I6_15 | * | het | 99.0039 | 98.6943 | 99.3155 | 60.3259 | 9902 | 131 | 9866 | 68 | 49 | 72.0588 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e0 | homalt | 60.3616 | 53.1472 | 69.8423 | 60.3244 | 2170 | 1913 | 2170 | 937 | 869 | 92.7428 | |
| ckim-isaac | SNP | ti | map_l125_m1_e0 | homalt | 68.7652 | 52.4129 | 99.9482 | 60.3233 | 5789 | 5256 | 5789 | 3 | 3 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l125_m1_e0 | homalt | 99.5597 | 99.2757 | 99.8453 | 60.3228 | 10965 | 80 | 10970 | 17 | 16 | 94.1176 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 33.4975 | 22.2222 | 68.0000 | 60.3175 | 6 | 21 | 17 | 8 | 6 | 75.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7294 | 94.6488 | 98.9035 | 60.3171 | 14592 | 825 | 15424 | 171 | 158 | 92.3977 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.8010 | 94.0359 | 97.6336 | 60.3151 | 2570 | 163 | 2558 | 62 | 59 | 95.1613 | |
| astatham-gatk | SNP | * | map_l100_m2_e1 | homalt | 99.6157 | 99.3200 | 99.9131 | 60.3111 | 27607 | 189 | 27607 | 24 | 19 | 79.1667 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.3833 | 99.2084 | 86.4368 | 60.3102 | 376 | 3 | 376 | 59 | 59 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.0261 | 98.4496 | 99.6094 | 60.3101 | 254 | 4 | 255 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 24.8195 | 14.3396 | 92.2078 | 60.3093 | 76 | 454 | 71 | 6 | 5 | 83.3333 | |
| ckim-isaac | INDEL | I16_PLUS | * | het | 78.5832 | 69.8308 | 89.8441 | 60.3038 | 1898 | 820 | 1902 | 215 | 129 | 60.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9175 | 99.8900 | 99.9450 | 60.3037 | 10899 | 12 | 10895 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3617 | 97.6852 | 99.0476 | 60.3025 | 211 | 5 | 208 | 2 | 1 | 50.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1544 | 99.6124 | 94.8148 | 60.2941 | 257 | 1 | 256 | 14 | 13 | 92.8571 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.1122 | 95.6040 | 96.6259 | 60.2914 | 41430 | 1905 | 41238 | 1440 | 1303 | 90.4861 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | HG002complexvar | hetalt | 89.8660 | 82.0896 | 99.2701 | 60.2899 | 275 | 60 | 272 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7358 | 99.5014 | 99.9714 | 60.2855 | 6984 | 35 | 6981 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8252 | 99.7211 | 97.9452 | 60.2829 | 715 | 2 | 715 | 15 | 14 | 93.3333 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m1_e0 | het | 98.7165 | 97.6842 | 99.7708 | 60.2794 | 17843 | 423 | 17844 | 41 | 7 | 17.0732 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4663 | 97.1991 | 99.7669 | 60.2778 | 1284 | 37 | 1284 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | * | * | * | 99.4009 | 99.3458 | 99.4561 | 60.2776 | 342288 | 2254 | 342154 | 1871 | 1513 | 80.8658 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 8.0635 | 4.5113 | 37.9310 | 60.2740 | 6 | 127 | 22 | 36 | 4 | 11.1111 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 78.6619 | 71.5415 | 87.3563 | 60.2740 | 1267 | 504 | 304 | 44 | 44 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.3802 | 99.4681 | 93.4783 | 60.2735 | 561 | 3 | 1032 | 72 | 70 | 97.2222 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7812 | 96.5482 | 99.0462 | 60.2645 | 15216 | 544 | 15057 | 145 | 123 | 84.8276 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.4411 | 98.4169 | 87.1495 | 60.2600 | 373 | 6 | 373 | 55 | 54 | 98.1818 | |
| rpoplin-dv42 | INDEL | I1_5 | * | het | 99.3402 | 99.5015 | 99.1794 | 60.2585 | 78647 | 394 | 78679 | 651 | 605 | 92.9339 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.6576 | 91.5216 | 95.8958 | 60.2572 | 1209 | 112 | 1215 | 52 | 40 | 76.9231 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 75.9259 | 61.5000 | 99.1935 | 60.2564 | 123 | 77 | 123 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1176 | 97.7691 | 98.4687 | 60.2554 | 15689 | 358 | 15690 | 244 | 227 | 93.0328 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 96.5006 | 96.2099 | 96.7930 | 60.2549 | 330 | 13 | 332 | 11 | 11 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 86.8762 | 81.9779 | 92.3970 | 60.2527 | 3266 | 718 | 3342 | 275 | 210 | 76.3636 | |
| eyeh-varpipe | SNP | ti | map_siren | het | 99.1597 | 99.7515 | 98.5748 | 60.2517 | 62227 | 155 | 60657 | 877 | 34 | 3.8769 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7861 | 99.6723 | 99.9000 | 60.2486 | 6996 | 23 | 6996 | 7 | 5 | 71.4286 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.0809 | 95.6851 | 98.5179 | 60.2481 | 1264 | 57 | 1263 | 19 | 15 | 78.9474 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.8238 | 95.1411 | 88.7300 | 60.2423 | 10926 | 558 | 10920 | 1387 | 1378 | 99.3511 | |
| gduggal-bwavard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.4880 | 97.6215 | 97.3548 | 60.2420 | 27294 | 665 | 27125 | 737 | 204 | 27.6798 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 83.5750 | 73.9861 | 96.0194 | 60.2412 | 27073 | 9519 | 27065 | 1122 | 616 | 54.9020 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 99.2405 | 99.4924 | 98.9899 | 60.2410 | 196 | 1 | 196 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | * | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 60.2410 | 33 | 0 | 33 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.4409 | 97.7011 | 99.1919 | 60.2410 | 425 | 10 | 491 | 4 | 2 | 50.0000 | |
| cchapple-custom | SNP | tv | map_l100_m2_e1 | homalt | 98.7868 | 97.6027 | 100.0000 | 60.2358 | 9079 | 223 | 9073 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | homalt | 99.7908 | 99.6657 | 99.9162 | 60.2352 | 27431 | 92 | 27431 | 23 | 18 | 78.2609 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8425 | 93.0514 | 98.8062 | 60.2346 | 616 | 46 | 1407 | 17 | 12 | 70.5882 | |
| ckim-gatk | INDEL | I6_15 | * | het | 98.9455 | 98.8239 | 99.0674 | 60.2345 | 9915 | 118 | 9879 | 93 | 52 | 55.9140 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.4218 | 98.8417 | 94.1176 | 60.2339 | 256 | 3 | 256 | 16 | 15 | 93.7500 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.5000 | 71.7391 | 97.0588 | 60.2339 | 66 | 26 | 66 | 2 | 1 | 50.0000 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | homalt | 99.6739 | 99.5116 | 99.8367 | 60.2338 | 9169 | 45 | 9169 | 15 | 13 | 86.6667 | |