PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6151-6200 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 735 | 0 | 0 | 0 | |||
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | * | 94.4568 | 97.0001 | 92.0434 | 74.6951 | 23766 | 735 | 23680 | 2047 | 149 | 7.2789 | |
| gduggal-snapfb | INDEL | D1_5 | * | homalt | 97.4626 | 98.4998 | 96.4470 | 62.9841 | 48192 | 734 | 48237 | 1777 | 1307 | 73.5509 | |
| cchapple-custom | INDEL | D6_15 | * | * | 97.8623 | 97.1869 | 98.5472 | 48.1960 | 25358 | 734 | 26658 | 393 | 348 | 88.5496 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e0 | het | 99.0800 | 98.4181 | 99.7510 | 64.4052 | 45665 | 734 | 45667 | 114 | 41 | 35.9649 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.9113 | 89.3360 | 96.7846 | 77.0025 | 6149 | 734 | 6291 | 209 | 19 | 9.0909 | |
| ghariani-varprowl | SNP | tv | HG002complexvar | het | 98.7696 | 99.5137 | 98.0366 | 26.9661 | 149998 | 733 | 150145 | 3007 | 54 | 1.7958 | |
| anovak-vg | INDEL | * | map_l100_m1_e0 | het | 70.6925 | 67.2036 | 74.5635 | 86.2608 | 1502 | 733 | 1580 | 539 | 154 | 28.5714 | |
| anovak-vg | INDEL | D1_5 | HG002compoundhet | het | 54.0229 | 57.5810 | 50.8790 | 62.2806 | 995 | 733 | 4428 | 4275 | 2764 | 64.6550 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | hetalt | 78.3575 | 65.0620 | 98.4827 | 54.0810 | 1365 | 733 | 1363 | 21 | 19 | 90.4762 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002compoundhet | hetalt | 78.6021 | 65.0263 | 99.3421 | 43.5644 | 1361 | 732 | 1359 | 9 | 8 | 88.8889 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 80.9919 | 72.4294 | 91.8503 | 55.9362 | 1923 | 732 | 2209 | 196 | 151 | 77.0408 | |
| anovak-vg | SNP | * | map_l250_m2_e0 | homalt | 83.9868 | 72.7476 | 99.3333 | 88.4225 | 1954 | 732 | 1937 | 13 | 9 | 69.2308 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 51.3343 | 37.8608 | 79.6954 | 89.2663 | 446 | 732 | 471 | 120 | 38 | 31.6667 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.0618 | 78.8133 | 94.7787 | 77.2212 | 2723 | 732 | 2741 | 151 | 73 | 48.3444 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e1 | homalt | 93.5797 | 87.9486 | 99.9813 | 71.5146 | 5342 | 732 | 5342 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | * | 96.6675 | 94.0758 | 99.4060 | 64.7187 | 11624 | 732 | 11547 | 69 | 52 | 75.3623 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.1719 | 93.0119 | 99.5542 | 28.6148 | 9743 | 732 | 9825 | 44 | 44 | 100.0000 | |
| cchapple-custom | SNP | ti | map_l100_m0_e0 | * | 96.8619 | 96.6377 | 97.0872 | 70.6515 | 21039 | 732 | 21032 | 631 | 173 | 27.4168 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4153 | 95.0558 | 97.8143 | 50.9442 | 14054 | 731 | 14052 | 314 | 309 | 98.4076 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.7118 | 87.9829 | 91.5099 | 73.1427 | 5352 | 731 | 5303 | 492 | 469 | 95.3252 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.3085 | 94.9832 | 95.6360 | 75.7457 | 13840 | 731 | 13850 | 632 | 351 | 55.5380 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.3085 | 94.9832 | 95.6360 | 75.7457 | 13840 | 731 | 13850 | 632 | 351 | 55.5380 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | homalt | 51.4655 | 44.9548 | 60.1815 | 60.0161 | 597 | 731 | 597 | 395 | 356 | 90.1266 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 86.7164 | 95.8976 | 79.1397 | 59.1322 | 17088 | 731 | 18434 | 4859 | 4632 | 95.3283 | |
| gduggal-snapvard | SNP | * | segdup | * | 98.2794 | 97.3955 | 99.1795 | 93.1728 | 27336 | 731 | 27076 | 224 | 72 | 32.1429 | |
| ckim-dragen | INDEL | I6_15 | * | hetalt | 95.5238 | 91.4630 | 99.9619 | 38.0544 | 7821 | 730 | 7861 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 74.4984 | 65.6955 | 86.0254 | 69.2922 | 1398 | 730 | 1422 | 231 | 214 | 92.6407 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 82.0159 | 72.4008 | 94.5759 | 92.8167 | 1915 | 730 | 1918 | 110 | 13 | 11.8182 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.8199 | 86.2627 | 89.4344 | 51.7765 | 4584 | 730 | 11495 | 1358 | 772 | 56.8483 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 89.3374 | 80.8410 | 99.8295 | 33.0289 | 3076 | 729 | 1757 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | SNP | * | map_l100_m1_e0 | het | 99.0732 | 98.3928 | 99.7631 | 62.7556 | 44630 | 729 | 44632 | 106 | 41 | 38.6792 | |
| gduggal-snapplat | INDEL | * | segdup | * | 77.9673 | 71.4789 | 85.7514 | 96.5099 | 1827 | 729 | 1980 | 329 | 27 | 8.2067 | |
| hfeng-pmm2 | SNP | tv | HG002complexvar | * | 99.8387 | 99.7038 | 99.9739 | 21.6976 | 245423 | 729 | 245339 | 64 | 21 | 32.8125 | |
| ckim-dragen | INDEL | I6_15 | HG002compoundhet | hetalt | 95.5341 | 91.4607 | 99.9873 | 29.2729 | 7808 | 729 | 7849 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 84.2056 | 79.3893 | 89.6441 | 65.5967 | 2808 | 729 | 2796 | 323 | 253 | 78.3282 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002compoundhet | * | 96.3303 | 94.1081 | 98.6599 | 63.2057 | 11628 | 728 | 11632 | 158 | 151 | 95.5696 | |
| egarrison-hhga | SNP | tv | HG002complexvar | het | 99.7360 | 99.5170 | 99.9560 | 21.2359 | 150003 | 728 | 150023 | 66 | 28 | 42.4242 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | homalt | 93.5527 | 87.9009 | 99.9811 | 71.5032 | 5289 | 728 | 5290 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 1.8111 | 0.9524 | 18.4211 | 68.8525 | 7 | 728 | 7 | 31 | 22 | 70.9677 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 30.4360 | 18.8406 | 79.1469 | 74.6699 | 169 | 728 | 167 | 44 | 35 | 79.5455 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 77.8626 | 66.2338 | 94.4444 | 82.1887 | 1428 | 728 | 1428 | 84 | 26 | 30.9524 | |
| gduggal-bwaplat | SNP | * | HG002compoundhet | homalt | 95.7606 | 93.2573 | 98.4021 | 40.3893 | 10055 | 727 | 9976 | 162 | 149 | 91.9753 | |
| eyeh-varpipe | SNP | ti | * | * | 99.7598 | 99.9651 | 99.5553 | 19.0734 | 2084791 | 727 | 2061083 | 9206 | 307 | 3.3348 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 41.4960 | 66.6208 | 30.1322 | 55.6999 | 1451 | 727 | 1459 | 3383 | 3363 | 99.4088 | |
| anovak-vg | SNP | ti | map_l150_m0_e0 | het | 74.8246 | 85.7367 | 66.3765 | 86.9328 | 4370 | 727 | 4347 | 2202 | 593 | 26.9301 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9458 | 97.7276 | 98.1651 | 56.3127 | 31265 | 727 | 31189 | 583 | 575 | 98.6278 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 75.6587 | 80.6700 | 71.2335 | 62.4381 | 3034 | 727 | 2974 | 1201 | 1094 | 91.0908 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 75.6587 | 80.6700 | 71.2335 | 62.4381 | 3034 | 727 | 2974 | 1201 | 1094 | 91.0908 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.5482 | 82.0297 | 77.2125 | 65.3284 | 3314 | 726 | 2914 | 860 | 707 | 82.2093 | |