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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
701-750 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | tv | * | * | 99.2324 | 99.0032 | 99.4627 | 26.1679 | 960032 | 9666 | 955309 | 5161 | 1540 | 29.8392 | |
| ckim-isaac | SNP | tv | map_l100_m1_e0 | * | 75.3790 | 60.5730 | 99.7648 | 65.1235 | 14841 | 9660 | 14844 | 35 | 12 | 34.2857 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 58.6790 | 56.6022 | 60.9139 | 57.4205 | 12594 | 9656 | 12597 | 8083 | 5610 | 69.4049 | |
| gduggal-bwaplat | SNP | * | map_l125_m1_e0 | het | 79.2823 | 66.0433 | 99.1598 | 88.7864 | 18751 | 9641 | 18765 | 159 | 43 | 27.0440 | |
| asubramanian-gatk | SNP | * | map_l125_m0_e0 | het | 38.5630 | 23.9024 | 99.7364 | 95.6908 | 3027 | 9637 | 3027 | 8 | 5 | 62.5000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 48.9065 | 45.5178 | 52.8403 | 57.9746 | 8043 | 9627 | 8074 | 7206 | 5882 | 81.6264 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 48.9065 | 45.5178 | 52.8403 | 57.9746 | 8043 | 9627 | 8074 | 7206 | 5882 | 81.6264 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 45.8313 | 30.1293 | 95.7115 | 55.2632 | 4147 | 9617 | 5825 | 261 | 249 | 95.4023 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | het | 98.4409 | 96.9492 | 99.9794 | 17.3446 | 305163 | 9603 | 305113 | 63 | 21 | 33.3333 | |
| qzeng-custom | SNP | * | map_l150_m2_e1 | * | 81.4031 | 70.2204 | 96.8222 | 87.0167 | 22618 | 9592 | 22364 | 734 | 626 | 85.2861 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 44.0104 | 40.4063 | 48.3203 | 59.8954 | 6484 | 9563 | 6487 | 6938 | 6879 | 99.1496 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | * | 81.2952 | 70.0678 | 96.8072 | 87.0114 | 22318 | 9534 | 22073 | 728 | 620 | 85.1648 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 83.5750 | 73.9861 | 96.0194 | 60.2412 | 27073 | 9519 | 27065 | 1122 | 616 | 54.9020 | |
| jmaeng-gatk | SNP | ti | map_siren | * | 94.5677 | 90.5256 | 98.9876 | 65.0046 | 90847 | 9508 | 90832 | 929 | 92 | 9.9031 | |
| gduggal-bwaplat | SNP | ti | map_l150_m2_e1 | * | 70.2141 | 54.2827 | 99.3818 | 90.4903 | 11249 | 9474 | 11253 | 70 | 25 | 35.7143 | |
| ckim-gatk | SNP | ti | map_siren | * | 94.6168 | 90.5675 | 99.0452 | 64.7326 | 90889 | 9466 | 90874 | 876 | 96 | 10.9589 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 39.0121 | 35.9892 | 42.5893 | 55.2279 | 5321 | 9464 | 5316 | 7166 | 7112 | 99.2464 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 29.6245 | 17.6158 | 93.0702 | 66.7638 | 2023 | 9461 | 2122 | 158 | 138 | 87.3418 | |
| ckim-gatk | SNP | * | * | homalt | 99.5941 | 99.1985 | 99.9929 | 17.5422 | 1170702 | 9459 | 1170679 | 83 | 52 | 62.6506 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 56.8616 | 54.1076 | 59.9109 | 50.1524 | 11144 | 9452 | 11168 | 7473 | 5485 | 73.3976 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | * | 77.0714 | 71.7352 | 83.2654 | 65.6966 | 23933 | 9430 | 24301 | 4884 | 375 | 7.6781 | |
| gduggal-bwaplat | SNP | tv | map_siren | * | 88.3540 | 79.4753 | 99.4660 | 75.2106 | 36503 | 9427 | 36507 | 196 | 50 | 25.5102 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 77.1866 | 71.6422 | 83.6612 | 80.1878 | 23811 | 9425 | 27896 | 5448 | 1746 | 32.0485 | |
| jpowers-varprowl | SNP | ti | * | * | 99.5767 | 99.5483 | 99.6052 | 21.1558 | 2076086 | 9421 | 2076295 | 8230 | 1307 | 15.8809 | |
| gduggal-bwaplat | SNP | ti | map_l150_m2_e0 | * | 70.0796 | 54.1244 | 99.3737 | 90.4802 | 11102 | 9410 | 11106 | 70 | 25 | 35.7143 | |
| qzeng-custom | SNP | * | map_l150_m1_e0 | * | 80.7203 | 69.2737 | 96.6985 | 86.4603 | 21204 | 9405 | 20971 | 716 | 612 | 85.4749 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 60.5216 | 54.3406 | 68.2890 | 64.1858 | 11192 | 9404 | 14564 | 6763 | 3696 | 54.6503 | |
| qzeng-custom | SNP | * | map_l100_m2_e1 | het | 87.9932 | 79.9949 | 97.7685 | 81.4422 | 37516 | 9382 | 37154 | 848 | 656 | 77.3585 | |
| jmaeng-gatk | SNP | * | * | homalt | 99.5965 | 99.2051 | 99.9909 | 17.4792 | 1170780 | 9381 | 1170757 | 106 | 69 | 65.0943 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 54.4770 | 39.2554 | 88.9798 | 82.4941 | 6052 | 9365 | 6088 | 754 | 644 | 85.4111 | |
| asubramanian-gatk | SNP | ti | map_l100_m0_e0 | het | 49.6427 | 33.0401 | 99.7840 | 91.6649 | 4620 | 9363 | 4620 | 10 | 5 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l150_m2_e1 | homalt | 34.6568 | 20.9605 | 100.0000 | 92.1810 | 2479 | 9348 | 2479 | 0 | 0 | ||
| qzeng-custom | SNP | * | map_l100_m2_e0 | het | 87.9050 | 79.8638 | 97.7467 | 81.4691 | 37056 | 9343 | 36699 | 846 | 656 | 77.5414 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | het | 44.1440 | 28.3519 | 99.6487 | 94.9230 | 3690 | 9325 | 3688 | 13 | 5 | 38.4615 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 35.3630 | 32.4556 | 38.8425 | 53.3428 | 4474 | 9311 | 4470 | 7038 | 6992 | 99.3464 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 51.3775 | 37.0578 | 83.7332 | 64.5819 | 5479 | 9306 | 5235 | 1017 | 480 | 47.1976 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | * | 68.9590 | 52.8054 | 99.3512 | 89.9469 | 10409 | 9303 | 10413 | 68 | 24 | 35.2941 | |
| asubramanian-gatk | SNP | tv | * | homalt | 98.7491 | 97.5342 | 99.9946 | 20.2324 | 367824 | 9299 | 367810 | 20 | 17 | 85.0000 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | het | 87.7038 | 79.5123 | 97.7769 | 80.6669 | 36066 | 9293 | 35714 | 812 | 655 | 80.6650 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.2798 | 0.0000 | 0.0000 | 26 | 9265 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.2798 | 0.0000 | 0.0000 | 26 | 9265 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l150_m2_e0 | homalt | 34.4676 | 20.8223 | 100.0000 | 92.2232 | 2436 | 9263 | 2436 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.3873 | 0.0000 | 0.0000 | 36 | 9260 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.4843 | 0.0000 | 0.0000 | 45 | 9246 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.4843 | 0.0000 | 0.0000 | 45 | 9246 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.5379 | 0.0000 | 0.0000 | 50 | 9246 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | HG002complexvar | * | 98.0754 | 96.2442 | 99.9776 | 22.6117 | 236907 | 9245 | 236824 | 53 | 18 | 33.9623 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e0 | het | 44.0116 | 28.2431 | 99.6437 | 94.9202 | 3638 | 9243 | 3636 | 13 | 5 | 38.4615 | |