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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5401-5450 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | map_l125_m1_e0 | het | 85.4533 | 74.7728 | 99.6933 | 79.6242 | 13658 | 4608 | 13654 | 42 | 19 | 45.2381 | |
| ndellapenna-hhga | SNP | ti | map_l100_m0_e0 | het | 98.6920 | 97.6686 | 99.7371 | 67.9732 | 13657 | 326 | 13658 | 36 | 19 | 52.7778 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1021 | 99.2658 | 98.9390 | 69.0925 | 13656 | 101 | 13614 | 146 | 113 | 77.3973 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1021 | 99.2658 | 98.9390 | 69.0925 | 13656 | 101 | 13614 | 146 | 113 | 77.3973 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1235 | 99.2295 | 99.0178 | 67.7817 | 13651 | 106 | 13609 | 135 | 117 | 86.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1235 | 99.2295 | 99.0178 | 67.7817 | 13651 | 106 | 13609 | 135 | 117 | 86.6667 | |
| ckim-isaac | SNP | ti | func_cds | * | 99.4788 | 98.9918 | 99.9707 | 19.0273 | 13648 | 139 | 13648 | 4 | 2 | 50.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0981 | 99.2004 | 98.9959 | 68.2271 | 13647 | 110 | 13606 | 138 | 117 | 84.7826 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0981 | 99.2004 | 98.9959 | 68.2271 | 13647 | 110 | 13606 | 138 | 117 | 84.7826 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0727 | 99.1931 | 98.9527 | 67.4865 | 13646 | 111 | 13605 | 144 | 128 | 88.8889 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0727 | 99.1931 | 98.9527 | 67.4865 | 13646 | 111 | 13605 | 144 | 128 | 88.8889 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.5315 | 93.3228 | 87.9023 | 49.1930 | 13641 | 976 | 12701 | 1748 | 1525 | 87.2426 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0685 | 99.1132 | 99.0238 | 69.1438 | 13635 | 122 | 13593 | 134 | 112 | 83.5821 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0685 | 99.1132 | 99.0238 | 69.1438 | 13635 | 122 | 13593 | 134 | 112 | 83.5821 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 87.8267 | 81.6103 | 95.0682 | 57.7013 | 13633 | 3072 | 3971 | 206 | 202 | 98.0583 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 87.8267 | 81.6103 | 95.0682 | 57.7013 | 13633 | 3072 | 3971 | 206 | 202 | 98.0583 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | homalt | 84.8134 | 73.6671 | 99.9340 | 67.2110 | 13624 | 4870 | 13624 | 9 | 7 | 77.7778 | |
| qzeng-custom | SNP | * | map_l150_m1_e0 | het | 81.0937 | 70.5218 | 95.3942 | 89.4771 | 13622 | 5694 | 13504 | 652 | 548 | 84.0491 | |
| gduggal-bwavard | SNP | ti | map_l100_m0_e0 | het | 93.7781 | 97.4183 | 90.4002 | 80.9729 | 13622 | 361 | 13532 | 1437 | 84 | 5.8455 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.2085 | 99.0041 | 99.4137 | 68.4982 | 13620 | 137 | 13565 | 80 | 52 | 65.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.2085 | 99.0041 | 99.4137 | 68.4982 | 13620 | 137 | 13565 | 80 | 52 | 65.0000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 89.1201 | 81.4606 | 98.3693 | 34.9531 | 13608 | 3097 | 14116 | 234 | 204 | 87.1795 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 89.1201 | 81.4606 | 98.3693 | 34.9531 | 13608 | 3097 | 14116 | 234 | 204 | 87.1795 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 83.6015 | 87.3211 | 80.1860 | 72.6837 | 13602 | 1975 | 12246 | 3026 | 728 | 24.0582 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8086 | 98.8224 | 96.8153 | 66.1962 | 13595 | 162 | 13589 | 447 | 406 | 90.8277 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8086 | 98.8224 | 96.8153 | 66.1962 | 13595 | 162 | 13589 | 447 | 406 | 90.8277 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m0_e0 | het | 98.4715 | 97.2109 | 99.7652 | 55.6290 | 13593 | 390 | 13597 | 32 | 4 | 12.5000 | |
| ciseli-custom | SNP | * | map_l150_m2_e0 | het | 73.2869 | 67.4862 | 80.1784 | 84.7273 | 13587 | 6546 | 13571 | 3355 | 112 | 3.3383 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8269 | 98.7352 | 98.9188 | 69.0820 | 13583 | 174 | 13540 | 148 | 116 | 78.3784 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8269 | 98.7352 | 98.9188 | 69.0820 | 13583 | 174 | 13540 | 148 | 116 | 78.3784 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1054 | 98.7352 | 99.4784 | 63.8767 | 13583 | 174 | 13541 | 71 | 56 | 78.8732 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1054 | 98.7352 | 99.4784 | 63.8767 | 13583 | 174 | 13541 | 71 | 56 | 78.8732 | |
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.4957 | 77.2826 | 98.2029 | 77.4578 | 13577 | 3991 | 13607 | 249 | 50 | 20.0803 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 89.4795 | 84.4436 | 95.1541 | 60.5296 | 13576 | 2501 | 13588 | 692 | 434 | 62.7168 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 89.4795 | 84.4436 | 95.1541 | 60.5296 | 13576 | 2501 | 13588 | 692 | 434 | 62.7168 | |
| cchapple-custom | SNP | ti | map_l100_m0_e0 | het | 96.2084 | 96.8676 | 95.5581 | 74.9532 | 13545 | 438 | 13553 | 630 | 172 | 27.3016 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 89.3755 | 92.9518 | 86.0642 | 79.3543 | 13544 | 1027 | 13809 | 2236 | 557 | 24.9106 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 89.3755 | 92.9518 | 86.0642 | 79.3543 | 13544 | 1027 | 13809 | 2236 | 557 | 24.9106 | |
| gduggal-snapfb | SNP | ti | map_l100_m0_e0 | het | 96.0596 | 96.8390 | 95.2927 | 67.8767 | 13541 | 442 | 13543 | 669 | 329 | 49.1779 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.4678 | 77.0663 | 91.0292 | 80.6522 | 13539 | 4029 | 13577 | 1338 | 103 | 7.6981 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 58.8469 | 92.5566 | 43.1364 | 52.0545 | 13529 | 1088 | 13550 | 17862 | 17494 | 97.9398 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1543 | 98.3354 | 97.9739 | 68.1869 | 13528 | 229 | 13491 | 279 | 216 | 77.4194 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1543 | 98.3354 | 97.9739 | 68.1869 | 13528 | 229 | 13491 | 279 | 216 | 77.4194 | |
| anovak-vg | SNP | ti | func_cds | * | 98.6277 | 98.0852 | 99.1763 | 27.7317 | 13523 | 264 | 13486 | 112 | 79 | 70.5357 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m0_e0 | het | 98.2231 | 96.6531 | 99.8449 | 50.2864 | 13515 | 468 | 13519 | 21 | 2 | 9.5238 | |
| astatham-gatk | SNP | tv | map_l125_m1_e0 | * | 91.3826 | 84.3531 | 99.6900 | 75.2873 | 13510 | 2506 | 13508 | 42 | 14 | 33.3333 | |
| jmaeng-gatk | SNP | ti | map_l100_m2_e0 | homalt | 84.8820 | 73.7670 | 99.9408 | 66.4315 | 13506 | 4803 | 13506 | 8 | 7 | 87.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 86.2115 | 84.1466 | 88.3803 | 58.2216 | 13503 | 2544 | 13516 | 1777 | 1745 | 98.1992 | |
| ckim-gatk | SNP | ti | map_l150_m1_e0 | * | 80.5127 | 68.3289 | 97.9843 | 87.5524 | 13469 | 6243 | 13465 | 277 | 34 | 12.2744 | |
| jmaeng-gatk | SNP | ti | map_l150_m1_e0 | * | 80.4694 | 68.3289 | 97.8561 | 87.7017 | 13469 | 6243 | 13465 | 295 | 34 | 11.5254 | |