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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76401-76450 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | het | 59.9144 | 80.4398 | 47.7343 | 63.4097 | 1390 | 338 | 1380 | 1511 | 1467 | 97.0880 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e1 | * | 99.0741 | 98.3690 | 99.7895 | 74.1500 | 20385 | 338 | 20385 | 43 | 23 | 53.4884 | |
| qzeng-custom | SNP | tv | map_l250_m1_e0 | homalt | 75.0174 | 60.5140 | 98.6641 | 89.2181 | 518 | 338 | 517 | 7 | 7 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 87.7895 | 79.0971 | 98.6283 | 41.6540 | 1279 | 338 | 1510 | 21 | 19 | 90.4762 | |
| ckim-isaac | SNP | tv | segdup | * | 97.9382 | 96.0384 | 99.9147 | 88.7225 | 8194 | 338 | 8196 | 7 | 4 | 57.1429 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 51.5543 | 84.6990 | 37.0542 | 41.5748 | 1871 | 338 | 2161 | 3671 | 3393 | 92.4271 | |
| cchapple-custom | SNP | tv | map_l150_m2_e0 | * | 96.3013 | 97.0233 | 95.5899 | 79.4079 | 11017 | 338 | 11011 | 508 | 83 | 16.3386 | |
| cchapple-custom | SNP | tv | map_l150_m2_e1 | * | 96.3274 | 97.0614 | 95.6045 | 79.4325 | 11164 | 338 | 11158 | 513 | 83 | 16.1793 | |
| ckim-dragen | SNP | ti | map_l100_m1_e0 | * | 98.6835 | 99.2948 | 98.0797 | 66.8879 | 47593 | 338 | 47601 | 932 | 106 | 11.3734 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 3.4286 | 0.0000 | 0.0000 | 12 | 338 | 0 | 0 | 0 | ||
| ckim-isaac | INDEL | * | map_l125_m0_e0 | * | 75.7650 | 61.6780 | 98.1917 | 90.2709 | 544 | 338 | 543 | 10 | 2 | 20.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m0_e0 | * | 75.1793 | 60.7184 | 98.6817 | 93.9453 | 524 | 339 | 524 | 7 | 1 | 14.2857 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.9677 | 74.2205 | 94.0520 | 41.4581 | 976 | 339 | 1012 | 64 | 60 | 93.7500 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 18.9573 | 10.5541 | 93.0233 | 70.5479 | 40 | 339 | 40 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.5865 | 0.0000 | 0.0000 | 2 | 339 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | map_l250_m1_e0 | homalt | 88.1167 | 78.9048 | 99.7638 | 88.2047 | 1268 | 339 | 1267 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | het | 85.0213 | 95.7305 | 76.4670 | 87.2666 | 7601 | 339 | 7519 | 2314 | 131 | 5.6612 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.5865 | 0.0000 | 0.0000 | 2 | 339 | 0 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 30.1911 | 18.8995 | 75.0000 | 65.9016 | 79 | 339 | 78 | 26 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | HG002complexvar | hetalt | 94.3098 | 90.8354 | 98.0606 | 74.9985 | 3360 | 339 | 4045 | 80 | 79 | 98.7500 | |
| jlack-gatk | SNP | * | map_l100_m2_e0 | het | 95.7132 | 99.2694 | 92.4029 | 79.6895 | 46060 | 339 | 46049 | 3786 | 266 | 7.0259 | |
| jlack-gatk | SNP | * | map_l100_m2_e1 | het | 95.7463 | 99.2772 | 92.4580 | 79.7064 | 46559 | 339 | 46548 | 3797 | 267 | 7.0319 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | * | 96.7576 | 98.8796 | 94.7247 | 79.7203 | 29919 | 339 | 29915 | 1666 | 151 | 9.0636 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | * | 96.7790 | 98.8910 | 94.7553 | 79.7616 | 30230 | 339 | 30226 | 1673 | 151 | 9.0257 | |
| ckim-vqsr | SNP | ti | map_l250_m0_e0 | homalt | 36.3977 | 22.2477 | 100.0000 | 97.9282 | 97 | 339 | 97 | 0 | 0 | ||
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e0 | het | 71.6654 | 57.2509 | 95.7806 | 78.7349 | 454 | 339 | 454 | 20 | 12 | 60.0000 | |
| qzeng-custom | INDEL | I1_5 | HG002complexvar | het | 98.6121 | 98.1362 | 99.0926 | 55.1360 | 17850 | 339 | 18675 | 171 | 70 | 40.9357 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | hetalt | 97.6303 | 95.8410 | 99.4878 | 26.1770 | 7812 | 339 | 7769 | 40 | 40 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | HG002complexvar | homalt | 98.2704 | 98.7420 | 97.8033 | 53.5832 | 26687 | 340 | 26669 | 599 | 404 | 67.4457 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 75.6710 | 62.0959 | 96.8421 | 54.7619 | 557 | 340 | 92 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.7419 | 51.2195 | 100.0000 | 45.5901 | 357 | 340 | 438 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.2933 | 0.0000 | 0.0000 | 1 | 340 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.0644 | 85.9330 | 96.8475 | 84.2543 | 2077 | 340 | 2089 | 68 | 28 | 41.1765 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 38.9082 | 26.7241 | 71.5116 | 73.2919 | 124 | 340 | 123 | 49 | 41 | 83.6735 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 64.6690 | 47.9326 | 99.3631 | 60.5528 | 313 | 340 | 312 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | * | 93.3057 | 90.9478 | 95.7892 | 85.0002 | 3416 | 340 | 3435 | 151 | 40 | 26.4901 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.3687 | 31.5895 | 80.4688 | 67.2634 | 157 | 340 | 103 | 25 | 24 | 96.0000 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e0 | homalt | 71.3322 | 55.4391 | 100.0000 | 91.6370 | 423 | 340 | 423 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | * | 59.0339 | 60.9195 | 57.2614 | 87.6774 | 530 | 340 | 552 | 412 | 282 | 68.4466 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | * | 99.3568 | 98.9326 | 99.7847 | 74.8691 | 31512 | 340 | 31512 | 68 | 32 | 47.0588 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e0 | * | 85.4172 | 75.1462 | 98.9403 | 84.3863 | 1028 | 340 | 1027 | 11 | 5 | 45.4545 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7018 | 96.4052 | 97.0003 | 44.3991 | 9118 | 340 | 9119 | 282 | 276 | 97.8723 | |
| raldana-dualsentieon | INDEL | D1_5 | HG002compoundhet | het | 85.6766 | 80.3241 | 91.7935 | 77.7237 | 1388 | 340 | 1387 | 124 | 122 | 98.3871 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1408 | 94.9941 | 99.3867 | 29.3238 | 6471 | 341 | 6482 | 40 | 39 | 97.5000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.2389 | 96.9229 | 97.5570 | 48.8051 | 10741 | 341 | 10742 | 269 | 266 | 98.8848 | |
| rpoplin-dv42 | SNP | tv | HG002complexvar | * | 99.9096 | 99.8615 | 99.9577 | 21.9240 | 245811 | 341 | 245702 | 104 | 87 | 83.6538 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 74.3814 | 59.9765 | 97.8927 | 91.3619 | 511 | 341 | 511 | 11 | 10 | 90.9091 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 87.9792 | 78.9116 | 99.4012 | 47.6489 | 1276 | 341 | 166 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 341 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | * | map_l125_m2_e0 | het | 80.7999 | 75.4853 | 86.9195 | 94.1195 | 1050 | 341 | 1123 | 169 | 24 | 14.2012 | |