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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72351-72400 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | tv | segdup | het | 97.1722 | 97.0305 | 97.3143 | 94.5962 | 5130 | 157 | 5109 | 141 | 42 | 29.7872 | |
| ckim-dragen | SNP | * | map_l100_m1_e0 | homalt | 99.6437 | 99.4186 | 99.8698 | 55.6951 | 26846 | 157 | 26851 | 35 | 32 | 91.4286 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6551 | 99.1981 | 98.1180 | 73.7453 | 19422 | 157 | 19551 | 375 | 40 | 10.6667 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6551 | 99.1981 | 98.1180 | 73.7453 | 19422 | 157 | 19551 | 375 | 40 | 10.6667 | |
| ckim-dragen | SNP | tv | map_l125_m2_e1 | * | 98.4134 | 99.0575 | 97.7776 | 75.6170 | 16500 | 157 | 16499 | 375 | 39 | 10.4000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.3378 | 87.8389 | 99.5712 | 29.6743 | 1134 | 157 | 1161 | 5 | 5 | 100.0000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 93.3273 | 88.3962 | 98.8411 | 66.0101 | 1196 | 157 | 1194 | 14 | 3 | 21.4286 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.2432 | 98.6409 | 90.2208 | 73.3792 | 11395 | 157 | 11440 | 1240 | 455 | 36.6935 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.2432 | 98.6409 | 90.2208 | 73.3792 | 11395 | 157 | 11440 | 1240 | 455 | 36.6935 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e1 | homalt | 73.1293 | 57.7957 | 99.5370 | 81.0360 | 215 | 157 | 215 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.3378 | 87.8389 | 99.5712 | 29.6743 | 1134 | 157 | 1161 | 5 | 5 | 100.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4319 | 99.1366 | 99.7290 | 37.0539 | 18026 | 157 | 18031 | 49 | 28 | 57.1429 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e0 | * | 98.3456 | 98.0089 | 98.6847 | 88.0100 | 7728 | 157 | 7728 | 103 | 68 | 66.0194 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.2210 | 94.2188 | 96.2448 | 59.6025 | 2575 | 158 | 2563 | 100 | 97 | 97.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 57.8898 | 44.1696 | 83.9744 | 90.0574 | 125 | 158 | 131 | 25 | 7 | 28.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 28.8874 | 67.7551 | 18.3569 | 52.9208 | 332 | 158 | 324 | 1441 | 1432 | 99.3754 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 59.1477 | 49.1961 | 74.1463 | 60.0390 | 153 | 158 | 152 | 53 | 53 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 3.6585 | 1.8634 | 100.0000 | 66.6667 | 3 | 158 | 1 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 27.1889 | 0.0000 | 0.0000 | 59 | 158 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 52.7742 | 65.9483 | 43.9872 | 44.8571 | 306 | 158 | 823 | 1048 | 780 | 74.4275 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 69.4882 | 58.7467 | 85.0365 | 91.8258 | 225 | 158 | 233 | 41 | 17 | 41.4634 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | het | 79.8457 | 72.3776 | 89.0323 | 97.1314 | 414 | 158 | 414 | 51 | 14 | 27.4510 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6490 | 99.5246 | 99.7737 | 73.4430 | 33078 | 158 | 33071 | 75 | 56 | 74.6667 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e0 | * | 94.2072 | 94.5177 | 93.8987 | 91.9751 | 2724 | 158 | 2724 | 177 | 36 | 20.3390 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e1 | * | 94.2423 | 94.5816 | 93.9053 | 92.0320 | 2758 | 158 | 2758 | 179 | 36 | 20.1117 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9905 | 98.3405 | 99.6492 | 44.7855 | 9363 | 158 | 9375 | 33 | 31 | 93.9394 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m2_e1 | homalt | 73.0375 | 57.5269 | 100.0000 | 91.1825 | 214 | 158 | 214 | 0 | 0 | ||
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.7133 | 98.5372 | 89.3396 | 84.5796 | 10643 | 158 | 9822 | 1172 | 111 | 9.4710 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.7538 | 63.8444 | 96.2069 | 68.5125 | 279 | 158 | 279 | 11 | 11 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m1_e0 | homalt | 68.1452 | 51.6820 | 100.0000 | 91.3951 | 169 | 158 | 169 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.0673 | 90.9611 | 99.5617 | 70.9107 | 1590 | 158 | 1590 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6451 | 97.4107 | 97.8807 | 69.5745 | 5944 | 158 | 34593 | 749 | 587 | 78.3712 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 36.6412 | 23.3010 | 85.7143 | 59.4203 | 48 | 158 | 48 | 8 | 8 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.8403 | 97.7490 | 99.9563 | 59.9965 | 6861 | 158 | 6856 | 3 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | * | map_siren | homalt | 99.8258 | 99.7135 | 99.9382 | 52.6378 | 54998 | 158 | 54999 | 34 | 30 | 88.2353 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7947 | 99.0383 | 98.5524 | 55.6705 | 16271 | 158 | 31384 | 461 | 49 | 10.6291 | |
| raldana-dualsentieon | INDEL | * | * | homalt | 99.5287 | 99.8738 | 99.1860 | 57.6626 | 125014 | 158 | 125023 | 1026 | 1009 | 98.3431 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | het | 94.4206 | 94.1869 | 94.6554 | 70.0188 | 2560 | 158 | 2568 | 145 | 95 | 65.5172 | |
| hfeng-pmm3 | SNP | * | map_l150_m1_e0 | het | 99.2744 | 99.1820 | 99.3670 | 75.4908 | 19158 | 158 | 19152 | 122 | 13 | 10.6557 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.5176 | 92.5752 | 96.5432 | 70.8171 | 1970 | 158 | 1955 | 70 | 56 | 80.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 80.8252 | 67.8208 | 100.0000 | 29.8419 | 333 | 158 | 355 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I16_PLUS | HG002compoundhet | hetalt | 96.0539 | 92.4510 | 99.9489 | 46.1750 | 1935 | 158 | 1955 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4720 | 97.5389 | 99.4231 | 74.9870 | 6262 | 158 | 6204 | 36 | 21 | 58.3333 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4720 | 97.5389 | 99.4231 | 74.9870 | 6262 | 158 | 6204 | 36 | 21 | 58.3333 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.2126 | 92.7854 | 99.9028 | 33.4520 | 2032 | 158 | 2055 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l125_m1_e0 | homalt | 99.2298 | 98.5695 | 99.8991 | 63.8084 | 10887 | 158 | 10887 | 11 | 9 | 81.8182 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | het | 99.0951 | 98.7227 | 99.4704 | 74.9167 | 12212 | 158 | 12208 | 65 | 17 | 26.1538 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002complexvar | het | 99.4978 | 99.1313 | 99.8669 | 57.6162 | 18031 | 158 | 18012 | 24 | 10 | 41.6667 | |
| egarrison-hhga | SNP | tv | map_l125_m1_e0 | * | 99.3983 | 99.0135 | 99.7861 | 68.1855 | 15858 | 158 | 15858 | 34 | 17 | 50.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3072 | 99.0383 | 99.5775 | 51.0793 | 16271 | 158 | 35588 | 151 | 137 | 90.7285 | |