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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83201-83250 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.3046 | 77.4770 | 97.4025 | 63.5175 | 8586 | 2496 | 8587 | 229 | 186 | 81.2227 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 1.5360 | 0.0000 | 0.0000 | 39 | 2500 | 0 | 0 | 0 | ||
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.3986 | 91.8696 | 99.2095 | 63.6282 | 28260 | 2501 | 28237 | 225 | 152 | 67.5556 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | homalt | 99.3419 | 98.7072 | 99.9848 | 18.4737 | 190962 | 2501 | 190952 | 29 | 26 | 89.6552 | |
| mlin-fermikit | SNP | tv | map_l125_m1_e0 | homalt | 63.9810 | 57.3208 | 72.3922 | 52.9173 | 3359 | 2501 | 3359 | 1281 | 1204 | 93.9891 | |
| 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 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 76.5373 | 63.7864 | 95.6597 | 61.8480 | 4407 | 2502 | 4408 | 200 | 55 | 27.5000 | |
| gduggal-snapfb | INDEL | I1_5 | HG002compoundhet | hetalt | 85.0180 | 77.5969 | 94.0087 | 72.7861 | 8673 | 2504 | 4111 | 262 | 204 | 77.8626 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | * | 94.9349 | 96.5402 | 93.3822 | 73.4477 | 69898 | 2505 | 68917 | 4884 | 410 | 8.3948 | |
| astatham-gatk | SNP | tv | map_l125_m2_e0 | het | 86.2155 | 76.0103 | 99.5858 | 81.0010 | 7937 | 2505 | 7935 | 33 | 8 | 24.2424 | |
| astatham-gatk | SNP | tv | map_l125_m1_e0 | * | 91.3826 | 84.3531 | 99.6900 | 75.2873 | 13510 | 2506 | 13508 | 42 | 14 | 33.3333 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 83.3771 | 73.0169 | 97.1633 | 50.4684 | 6784 | 2507 | 6782 | 198 | 196 | 98.9899 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 83.3771 | 73.0169 | 97.1633 | 50.4684 | 6784 | 2507 | 6782 | 198 | 196 | 98.9899 | |
| gduggal-snapfb | INDEL | I1_5 | * | hetalt | 80.2098 | 77.5793 | 83.0249 | 77.6167 | 8685 | 2510 | 4128 | 844 | 445 | 52.7251 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 41.7793 | 36.0397 | 49.6933 | 42.7847 | 1416 | 2513 | 1458 | 1476 | 1368 | 92.6829 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 42.8527 | 36.9227 | 51.0519 | 66.2725 | 1471 | 2513 | 1456 | 1396 | 1253 | 89.7564 | |
| jpowers-varprowl | INDEL | * | HG002complexvar | het | 92.4718 | 94.5577 | 90.4760 | 57.5873 | 43697 | 2515 | 43680 | 4598 | 4462 | 97.0422 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e0 | homalt | 64.7739 | 58.2018 | 73.0192 | 57.0520 | 3502 | 2515 | 3502 | 1294 | 1217 | 94.0495 | |
| qzeng-custom | SNP | ti | map_l150_m2_e0 | homalt | 79.9782 | 66.9643 | 99.2706 | 72.9194 | 5100 | 2516 | 5036 | 37 | 37 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.1524 | 77.3435 | 97.2257 | 44.5184 | 8589 | 2516 | 8586 | 245 | 240 | 97.9592 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| jmaeng-gatk | SNP | tv | map_l125_m0_e0 | * | 75.4933 | 61.9967 | 96.5015 | 90.4918 | 4111 | 2520 | 4110 | 149 | 7 | 4.6980 | |
| ckim-isaac | SNP | ti | map_l250_m2_e1 | * | 66.8585 | 50.3546 | 99.4553 | 90.8557 | 2556 | 2520 | 2556 | 14 | 3 | 21.4286 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 93.5454 | 91.9051 | 95.2453 | 77.4805 | 28622 | 2521 | 28425 | 1419 | 235 | 16.5610 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 93.5454 | 91.9051 | 95.2453 | 77.4805 | 28622 | 2521 | 28425 | 1419 | 235 | 16.5610 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 87.8316 | 82.7461 | 93.5831 | 40.4184 | 12095 | 2522 | 17909 | 1228 | 1155 | 94.0554 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 88.7092 | 85.8663 | 91.7468 | 78.0293 | 15328 | 2523 | 15363 | 1382 | 108 | 7.8148 | |
| qzeng-custom | SNP | ti | map_l150_m2_e1 | homalt | 80.1365 | 67.1910 | 99.2610 | 72.9055 | 5169 | 2524 | 5104 | 38 | 38 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l150_m1_e0 | het | 77.1500 | 63.6050 | 98.0249 | 91.7841 | 4418 | 2528 | 4417 | 89 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | homalt | 64.9030 | 58.3635 | 73.0928 | 57.1933 | 3545 | 2529 | 3545 | 1305 | 1228 | 94.0996 | |
| gduggal-bwafb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 81.8128 | 74.8933 | 90.1411 | 58.1664 | 7544 | 2529 | 8942 | 978 | 867 | 88.6503 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.3151 | 0.0000 | 0.0000 | 8 | 2531 | 0 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l125_m0_e0 | * | 75.4506 | 61.8308 | 96.7658 | 90.3686 | 4100 | 2531 | 4099 | 137 | 8 | 5.8394 | |
| astatham-gatk | SNP | tv | map_l125_m2_e1 | het | 86.2148 | 76.0068 | 99.5902 | 81.0461 | 8021 | 2532 | 8019 | 33 | 8 | 24.2424 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.2363 | 0.0000 | 0.0000 | 6 | 2533 | 0 | 0 | 0 | ||
| ckim-gatk | SNP | ti | HG002complexvar | homalt | 99.3341 | 98.6902 | 99.9864 | 18.4846 | 190929 | 2534 | 190919 | 26 | 23 | 88.4615 | |
| ciseli-custom | SNP | tv | map_l150_m2_e0 | het | 71.3414 | 65.0579 | 78.9685 | 85.0033 | 4718 | 2534 | 4716 | 1256 | 50 | 3.9809 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.1969 | 0.0000 | 0.0000 | 5 | 2534 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | ti | * | * | 99.5372 | 99.8784 | 99.1982 | 22.5770 | 2082957 | 2536 | 2083186 | 16837 | 1291 | 7.6676 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | * | 83.9950 | 90.1789 | 78.6048 | 56.2142 | 23286 | 2536 | 23381 | 6364 | 715 | 11.2351 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.5124 | 79.7221 | 69.9419 | 60.7095 | 9982 | 2539 | 10713 | 4604 | 2731 | 59.3180 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | * | 95.0024 | 96.5659 | 93.4887 | 74.9387 | 71424 | 2540 | 70426 | 4905 | 414 | 8.4404 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 93.3965 | 91.9097 | 94.9321 | 59.4498 | 28867 | 2541 | 29709 | 1586 | 1202 | 75.7881 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 93.3965 | 91.9097 | 94.9321 | 59.4498 | 28867 | 2541 | 29709 | 1586 | 1202 | 75.7881 | |
| 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 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 63.3251 | 46.6890 | 98.3795 | 37.6873 | 2228 | 2544 | 1882 | 31 | 28 | 90.3226 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 62.7608 | 46.6890 | 95.7058 | 37.3301 | 2228 | 2544 | 2251 | 101 | 89 | 88.1188 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 84.8964 | 75.6945 | 96.6451 | 41.6459 | 7929 | 2546 | 7922 | 275 | 269 | 97.8182 | |