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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68101-68150 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | map_l125_m2_e0 | het | 98.3415 | 97.9871 | 98.6985 | 86.8786 | 1363 | 28 | 1365 | 18 | 4 | 22.2222 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e0 | het | 98.2731 | 98.0590 | 98.4881 | 86.4620 | 1364 | 27 | 1368 | 21 | 3 | 14.2857 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5258 | 99.2722 | 99.7807 | 70.9677 | 1364 | 10 | 1365 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | het | 98.0266 | 98.0590 | 97.9943 | 89.7744 | 1364 | 27 | 1368 | 28 | 4 | 14.2857 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.5608 | 96.7376 | 96.3847 | 75.3388 | 1364 | 46 | 1333 | 50 | 40 | 80.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 69.2577 | 84.5629 | 58.6437 | 58.1740 | 1364 | 249 | 1937 | 1366 | 183 | 13.3968 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 63.4050 | 90.1585 | 48.8958 | 86.0954 | 1365 | 149 | 1417 | 1481 | 7 | 0.4727 | |
| jlack-gatk | INDEL | * | map_l125_m2_e0 | het | 92.6228 | 98.1308 | 87.7002 | 91.9195 | 1365 | 26 | 1369 | 192 | 9 | 4.6875 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | het | 97.6418 | 96.9460 | 98.3477 | 87.0294 | 1365 | 43 | 1369 | 23 | 8 | 34.7826 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | hetalt | 78.3575 | 65.0620 | 98.4827 | 54.0810 | 1365 | 733 | 1363 | 21 | 19 | 90.4762 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e0 | het | 95.4980 | 98.1308 | 93.0027 | 92.6879 | 1365 | 26 | 1369 | 103 | 7 | 6.7961 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4887 | 99.3450 | 99.6329 | 63.1294 | 1365 | 9 | 1357 | 5 | 1 | 20.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.4367 | 65.0167 | 84.3621 | 45.9065 | 1366 | 735 | 1845 | 342 | 338 | 98.8304 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 73.6043 | 64.1917 | 86.2515 | 56.0661 | 1366 | 762 | 1468 | 234 | 231 | 98.7179 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2012 | 98.4859 | 99.9268 | 62.0594 | 1366 | 21 | 1366 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4903 | 99.4178 | 99.5630 | 74.2111 | 1366 | 8 | 1367 | 6 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7729 | 96.8794 | 96.6667 | 75.3175 | 1366 | 44 | 1334 | 46 | 39 | 84.7826 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.3812 | 97.9211 | 98.8456 | 82.2966 | 1366 | 29 | 1370 | 16 | 2 | 12.5000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.5292 | 96.8794 | 96.1816 | 74.8551 | 1366 | 44 | 1335 | 53 | 43 | 81.1321 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7394 | 96.9504 | 96.5293 | 75.1304 | 1367 | 43 | 1335 | 48 | 39 | 81.2500 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6719 | 99.4905 | 99.8539 | 72.1465 | 1367 | 7 | 1367 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7083 | 99.4905 | 99.9270 | 74.1698 | 1367 | 7 | 1368 | 1 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.9295 | 80.9834 | 93.8179 | 77.6360 | 1367 | 321 | 1381 | 91 | 39 | 42.8571 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6719 | 99.4905 | 99.8540 | 71.6062 | 1367 | 7 | 1368 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6719 | 99.4905 | 99.8540 | 71.8223 | 1367 | 7 | 1368 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6719 | 99.4905 | 99.8540 | 71.2728 | 1367 | 7 | 1368 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e0 | het | 97.7864 | 98.2746 | 97.3031 | 88.7801 | 1367 | 24 | 1371 | 38 | 3 | 7.8947 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 95.1686 | 91.6276 | 98.9943 | 43.0908 | 1368 | 125 | 689 | 7 | 7 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e0 | * | 76.5529 | 62.2951 | 99.2743 | 94.4882 | 1368 | 828 | 1368 | 10 | 2 | 20.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7085 | 99.5633 | 99.8541 | 71.1368 | 1368 | 6 | 1369 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.4539 | 98.0645 | 98.8464 | 84.0977 | 1368 | 27 | 1371 | 16 | 8 | 50.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7759 | 97.0213 | 96.5318 | 75.2636 | 1368 | 42 | 1336 | 48 | 39 | 81.2500 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5267 | 99.5633 | 99.4902 | 73.5096 | 1368 | 6 | 1366 | 7 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6000 | 99.6361 | 99.5640 | 74.0720 | 1369 | 5 | 1370 | 6 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | * | 67.7061 | 62.3406 | 74.0821 | 90.8144 | 1369 | 827 | 1372 | 480 | 310 | 64.5833 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 74.5996 | 62.5114 | 92.4837 | 50.4052 | 1369 | 821 | 283 | 23 | 22 | 95.6522 | |
| qzeng-custom | INDEL | I1_5 | map_siren | het | 87.6104 | 81.4396 | 94.7930 | 85.2134 | 1369 | 312 | 1511 | 83 | 20 | 24.0964 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e0 | het | 97.9642 | 98.4184 | 97.5142 | 89.0844 | 1369 | 22 | 1373 | 35 | 5 | 14.2857 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7450 | 99.6361 | 99.8542 | 72.0228 | 1369 | 5 | 1370 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7814 | 99.6361 | 99.9271 | 72.2301 | 1369 | 5 | 1370 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5638 | 99.6361 | 99.4916 | 74.0824 | 1369 | 5 | 1370 | 7 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 87.1597 | 96.2729 | 79.6226 | 85.7802 | 1369 | 53 | 1055 | 270 | 36 | 13.3333 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e0 | het | 90.4577 | 98.4184 | 83.6884 | 91.8376 | 1369 | 22 | 1375 | 268 | 70 | 26.1194 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e0 | * | 82.9800 | 71.5405 | 98.7743 | 92.0775 | 1370 | 545 | 1370 | 17 | 7 | 41.1765 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.8721 | 77.5325 | 98.7699 | 72.5739 | 1370 | 397 | 1365 | 17 | 15 | 88.2353 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.7398 | 98.2079 | 99.2775 | 83.4529 | 1370 | 25 | 1374 | 10 | 4 | 40.0000 | |
| ckim-gatk | INDEL | * | map_l125_m2_e0 | het | 95.3815 | 98.4903 | 92.4630 | 92.4771 | 1370 | 21 | 1374 | 112 | 7 | 6.2500 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m2_e1 | * | 98.6318 | 98.2079 | 99.0593 | 84.2255 | 1370 | 25 | 1369 | 13 | 3 | 23.0769 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e1 | het | 97.4472 | 97.3011 | 97.5938 | 86.8092 | 1370 | 38 | 1379 | 34 | 9 | 26.4706 | |
| ndellapenna-hhga | INDEL | * | map_l150_m2_e0 | * | 97.7543 | 97.3011 | 98.2117 | 98.7639 | 1370 | 38 | 1373 | 25 | 9 | 36.0000 | |