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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5251-5300 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 47.5592 | 44.5161 | 51.0490 | 71.9424 | 69 | 86 | 219 | 210 | 175 | 83.3333 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | het | 90.6971 | 96.0523 | 85.9075 | 80.2123 | 13431 | 552 | 13338 | 2188 | 175 | 7.9982 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 55.0460 | 40.3746 | 86.4662 | 35.5308 | 388 | 573 | 1150 | 180 | 175 | 97.2222 | |
| gduggal-snapfb | SNP | * | map_l250_m1_e0 | * | 94.5000 | 94.2121 | 94.7896 | 89.4714 | 6804 | 418 | 6804 | 374 | 175 | 46.7914 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e1 | het | 94.2221 | 95.7257 | 92.7651 | 87.6052 | 5039 | 225 | 5039 | 393 | 175 | 44.5293 | |
| ndellapenna-hhga | SNP | tv | * | * | 99.8629 | 99.7865 | 99.9395 | 20.8763 | 967620 | 2070 | 967646 | 586 | 175 | 29.8635 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 79.2418 | 93.0939 | 68.9781 | 57.8721 | 337 | 25 | 945 | 425 | 175 | 41.1765 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.4416 | 94.4303 | 96.4748 | 33.6724 | 4832 | 285 | 4844 | 177 | 175 | 98.8701 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.8521 | 85.8447 | 83.8821 | 72.0175 | 752 | 124 | 968 | 186 | 175 | 94.0860 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.5816 | 99.2511 | 94.0520 | 47.6931 | 2783 | 21 | 2783 | 176 | 175 | 99.4318 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.9473 | 99.3365 | 94.6703 | 50.0000 | 3144 | 21 | 3144 | 177 | 175 | 98.8701 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | het | 93.5301 | 98.8559 | 88.7489 | 85.6678 | 19095 | 221 | 19089 | 2420 | 175 | 7.2314 | |
| jlack-gatk | SNP | ti | map_l100_m1_e0 | het | 96.3792 | 99.2318 | 93.6859 | 77.4968 | 29712 | 230 | 29705 | 2002 | 175 | 8.7413 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0336 | 96.1684 | 97.9144 | 65.7408 | 15461 | 616 | 15446 | 329 | 175 | 53.1915 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0336 | 96.1684 | 97.9144 | 65.7408 | 15461 | 616 | 15446 | 329 | 175 | 53.1915 | |
| cchapple-custom | SNP | * | map_l125_m0_e0 | het | 95.3778 | 96.3598 | 94.4157 | 80.7050 | 12203 | 461 | 12207 | 722 | 175 | 24.2382 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e1 | het | 64.8655 | 67.1260 | 62.7523 | 89.2822 | 341 | 167 | 342 | 203 | 175 | 86.2069 | |
| astatham-gatk | INDEL | D6_15 | * | het | 98.7915 | 99.4048 | 98.1857 | 62.8008 | 11523 | 69 | 11473 | 212 | 175 | 82.5472 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.9036 | 99.8930 | 94.0880 | 54.4523 | 2801 | 3 | 2801 | 176 | 175 | 99.4318 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2325 | 99.9052 | 94.6990 | 55.6809 | 3162 | 3 | 3162 | 177 | 175 | 98.8701 | |
| raldana-dualsentieon | INDEL | D1_5 | * | homalt | 99.7919 | 99.9448 | 99.6394 | 61.4897 | 48899 | 27 | 48904 | 177 | 175 | 98.8701 | |
| jli-custom | INDEL | I6_15 | HG002compoundhet | homalt | 26.1603 | 100.0000 | 15.0485 | 64.4214 | 31 | 0 | 31 | 175 | 175 | 100.0000 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | * | 97.1251 | 95.8153 | 98.4712 | 65.0788 | 11723 | 512 | 11723 | 182 | 174 | 95.6044 | |
| ltrigg-rtg1 | SNP | ti | * | * | 99.8970 | 99.8948 | 99.8992 | 16.3223 | 2083318 | 2194 | 2083241 | 2102 | 174 | 8.2778 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 90.9106 | 86.5682 | 95.7115 | 51.1635 | 5981 | 928 | 4419 | 198 | 174 | 87.8788 | |
| gduggal-bwafb | SNP | tv | HG002complexvar | * | 99.7871 | 99.7453 | 99.8289 | 23.3366 | 245528 | 627 | 245605 | 421 | 174 | 41.3302 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 85.2919 | 75.6705 | 97.7165 | 64.9393 | 8690 | 2794 | 8687 | 203 | 174 | 85.7143 | |
| eyeh-varpipe | SNP | * | HG002complexvar | het | 99.8105 | 99.8904 | 99.7307 | 18.2348 | 464990 | 510 | 429610 | 1160 | 174 | 15.0000 | |
| gduggal-snapfb | SNP | ti | HG002compoundhet | het | 78.4798 | 97.2856 | 65.7667 | 46.9249 | 9247 | 258 | 9427 | 4907 | 174 | 3.5460 | |
| gduggal-snapfb | SNP | ti | map_l150_m0_e0 | het | 94.2863 | 94.8597 | 93.7197 | 77.7514 | 4835 | 262 | 4835 | 324 | 174 | 53.7037 | |
| gduggal-snapfb | SNP | tv | map_l150_m2_e0 | het | 95.8184 | 97.4766 | 94.2156 | 77.2326 | 7069 | 183 | 7069 | 434 | 174 | 40.0922 | |
| gduggal-snapfb | SNP | tv | map_l150_m2_e1 | het | 95.8395 | 97.4959 | 94.2384 | 77.2735 | 7164 | 184 | 7164 | 438 | 174 | 39.7260 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 49.3757 | 100.0000 | 32.7807 | 90.9114 | 3 | 0 | 692 | 1419 | 174 | 12.2622 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 70.4099 | 93.3699 | 56.5131 | 85.6582 | 2211 | 157 | 2269 | 1746 | 174 | 9.9656 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0972 | 99.7896 | 96.4613 | 40.7376 | 4743 | 10 | 4743 | 174 | 174 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | * | homalt | 99.7668 | 99.8262 | 99.7075 | 52.8322 | 60323 | 105 | 60327 | 177 | 174 | 98.3051 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e0 | het | 64.4414 | 66.8008 | 62.2430 | 89.2549 | 332 | 165 | 333 | 202 | 174 | 86.1386 | |
| ciseli-custom | SNP | ti | map_l250_m1_e0 | homalt | 81.9434 | 80.0871 | 83.8878 | 86.5926 | 1287 | 320 | 1286 | 247 | 174 | 70.4453 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8791 | 98.9737 | 96.8085 | 71.3456 | 5786 | 60 | 5733 | 189 | 174 | 92.0635 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8791 | 98.9737 | 96.8085 | 71.3456 | 5786 | 60 | 5733 | 189 | 174 | 92.0635 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2882 | 97.8105 | 96.7714 | 71.7102 | 5718 | 128 | 5665 | 189 | 174 | 92.0635 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2882 | 97.8105 | 96.7714 | 71.7102 | 5718 | 128 | 5665 | 189 | 174 | 92.0635 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.9194 | 98.3001 | 97.5417 | 56.1712 | 16885 | 292 | 17260 | 435 | 173 | 39.7701 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e0 | * | 89.1114 | 94.4125 | 84.3738 | 85.7309 | 1808 | 107 | 2284 | 423 | 173 | 40.8983 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e1 | * | 88.9679 | 94.1723 | 84.3087 | 85.8664 | 1826 | 113 | 2305 | 429 | 173 | 40.3263 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e1 | het | 90.0889 | 96.5271 | 84.4559 | 85.0397 | 12563 | 452 | 12464 | 2294 | 173 | 7.5414 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 28.5833 | 18.1471 | 67.2691 | 61.6333 | 713 | 3216 | 670 | 326 | 173 | 53.0675 | |
| gduggal-snapfb | SNP | tv | map_l150_m1_e0 | het | 95.6989 | 97.3798 | 94.0751 | 75.4297 | 6764 | 182 | 6764 | 426 | 173 | 40.6103 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 63.1468 | 57.9627 | 69.3493 | 39.7938 | 404 | 293 | 405 | 179 | 173 | 96.6480 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.2748 | 93.5927 | 70.2749 | 53.8827 | 409 | 28 | 409 | 173 | 173 | 100.0000 | |