PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3001-3050 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.3222 | 88.6547 | 76.8340 | 52.5393 | 1430 | 183 | 1393 | 420 | 417 | 99.2857 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9439 | 96.7636 | 99.1534 | 64.2879 | 63236 | 2115 | 63011 | 538 | 416 | 77.3234 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9439 | 96.7636 | 99.1534 | 64.2879 | 63236 | 2115 | 63011 | 538 | 416 | 77.3234 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | homalt | 67.3385 | 92.8571 | 52.8222 | 77.1699 | 481 | 37 | 496 | 443 | 416 | 93.9052 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | * | 95.0768 | 93.6792 | 96.5167 | 65.8897 | 11575 | 781 | 11582 | 418 | 416 | 99.5215 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 81.0388 | 91.2786 | 72.8646 | 69.9021 | 1235 | 118 | 1254 | 467 | 416 | 89.0792 | |
| bgallagher-sentieon | INDEL | D6_15 | * | * | 98.0100 | 97.7771 | 98.2439 | 54.8211 | 25512 | 580 | 25511 | 456 | 416 | 91.2281 | |
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | * | 94.6830 | 94.0760 | 95.2979 | 36.3455 | 8496 | 535 | 8492 | 419 | 416 | 99.2840 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.7950 | 62.4006 | 76.6496 | 65.6998 | 2433 | 1466 | 2393 | 729 | 415 | 56.9273 | |
| mlin-fermikit | INDEL | D16_PLUS | * | het | 88.5250 | 92.6242 | 84.7733 | 71.4486 | 2926 | 233 | 2767 | 497 | 415 | 83.5010 | |
| qzeng-custom | SNP | ti | map_l100_m2_e0 | het | 87.5433 | 79.2078 | 97.8395 | 80.9563 | 24255 | 6367 | 24137 | 533 | 415 | 77.8612 | |
| qzeng-custom | SNP | ti | map_l100_m2_e1 | het | 87.6458 | 79.3605 | 97.8627 | 80.9215 | 24570 | 6390 | 24451 | 534 | 415 | 77.7154 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.6995 | 85.5368 | 87.8943 | 72.5250 | 3099 | 524 | 3093 | 426 | 415 | 97.4178 | |
| jpowers-varprowl | INDEL | * | map_siren | het | 92.1013 | 94.6539 | 89.6827 | 84.2292 | 4267 | 241 | 4268 | 491 | 415 | 84.5214 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 33.7796 | 27.0106 | 45.0758 | 47.5149 | 356 | 962 | 357 | 435 | 415 | 95.4023 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.8256 | 97.5251 | 96.1361 | 70.1065 | 17378 | 441 | 18561 | 746 | 415 | 55.6300 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1535 | 96.7800 | 97.5299 | 57.5288 | 17102 | 569 | 17097 | 433 | 414 | 95.6120 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1535 | 96.7800 | 97.5299 | 57.5288 | 17102 | 569 | 17097 | 433 | 414 | 95.6120 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 61.9472 | 80.3853 | 50.3893 | 46.9303 | 459 | 112 | 453 | 446 | 414 | 92.8251 | |
| ckim-dragen | INDEL | I6_15 | * | homalt | 96.6294 | 99.7115 | 93.7321 | 54.6498 | 6221 | 18 | 6221 | 416 | 414 | 99.5192 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | het | 87.3398 | 78.8625 | 97.8592 | 80.1613 | 23613 | 6329 | 23496 | 514 | 414 | 80.5447 | |
| gduggal-bwaplat | SNP | * | HG002compoundhet | * | 88.4972 | 90.4035 | 86.6696 | 48.3543 | 23344 | 2478 | 23445 | 3606 | 414 | 11.4809 | |
| jlack-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 60.9506 | 99.3921 | 43.9516 | 87.9475 | 327 | 2 | 327 | 417 | 414 | 99.2806 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | * | 95.0024 | 96.5659 | 93.4887 | 74.9387 | 71424 | 2540 | 70426 | 4905 | 414 | 8.4404 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | * | 94.2413 | 93.2455 | 95.2586 | 34.8015 | 8421 | 610 | 8418 | 419 | 413 | 98.5680 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.2920 | 98.4666 | 96.1450 | 64.1784 | 12329 | 192 | 12171 | 488 | 413 | 84.6311 | |
| qzeng-custom | INDEL | D16_PLUS | * | * | 79.4045 | 91.9517 | 69.8705 | 62.5471 | 6238 | 546 | 6528 | 2815 | 413 | 14.6714 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.7253 | 89.2979 | 77.0540 | 68.9962 | 4464 | 535 | 4755 | 1416 | 413 | 29.1667 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.7253 | 89.2979 | 77.0540 | 68.9962 | 4464 | 535 | 4755 | 1416 | 413 | 29.1667 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 73.9804 | 73.1132 | 74.8684 | 46.1375 | 2015 | 741 | 2276 | 764 | 413 | 54.0576 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.8290 | 73.2103 | 66.7462 | 59.7115 | 992 | 363 | 839 | 418 | 413 | 98.8038 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 82.4326 | 94.7547 | 72.9465 | 54.9486 | 1120 | 62 | 1119 | 415 | 412 | 99.2771 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.7018 | 87.7726 | 87.6311 | 81.7733 | 3180 | 443 | 3174 | 448 | 412 | 91.9643 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 73.4008 | 67.1988 | 80.8639 | 50.5130 | 1852 | 904 | 1872 | 443 | 412 | 93.0023 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 90.6735 | 97.5949 | 84.6689 | 62.9273 | 2313 | 57 | 2314 | 419 | 412 | 98.3294 | |
| mlin-fermikit | INDEL | I16_PLUS | HG002compoundhet | het | 6.2171 | 57.4468 | 3.2864 | 65.0533 | 27 | 20 | 14 | 412 | 412 | 100.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7311 | 98.5279 | 96.9471 | 62.1515 | 15528 | 232 | 15370 | 484 | 412 | 85.1240 | |
| hfeng-pmm2 | INDEL | * | * | het | 99.3911 | 99.1521 | 99.6313 | 58.9414 | 192487 | 1646 | 192126 | 711 | 412 | 57.9466 | |
| ckim-dragen | INDEL | I6_15 | HG002compoundhet | homalt | 12.7119 | 96.7742 | 6.8027 | 58.3176 | 30 | 1 | 30 | 411 | 411 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 62.4653 | 60.2952 | 64.7975 | 51.6129 | 817 | 538 | 1040 | 565 | 411 | 72.7434 | |
| cchapple-custom | SNP | * | map_l100_m2_e1 | * | 97.5551 | 97.7575 | 97.3536 | 69.9828 | 73061 | 1676 | 73060 | 1986 | 410 | 20.6445 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | * | 94.9349 | 96.5402 | 93.3822 | 73.4477 | 69898 | 2505 | 68917 | 4884 | 410 | 8.3948 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.1339 | 90.7869 | 95.6056 | 36.5855 | 10061 | 1021 | 9986 | 459 | 410 | 89.3246 | |
| ckim-dragen | INDEL | I1_5 | * | homalt | 99.5565 | 99.7948 | 99.3194 | 55.1956 | 60304 | 124 | 60271 | 413 | 409 | 99.0315 | |
| ciseli-custom | SNP | tv | * | het | 95.4085 | 98.2395 | 92.7361 | 26.7935 | 581287 | 10417 | 580583 | 45476 | 409 | 0.8994 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.6815 | 98.3806 | 91.2505 | 66.8429 | 4374 | 72 | 4349 | 417 | 409 | 98.0815 | |
| gduggal-snapvard | SNP | ti | map_siren | * | 96.3076 | 96.1556 | 96.4600 | 63.8276 | 96497 | 3858 | 95534 | 3506 | 409 | 11.6657 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e0 | * | 96.9548 | 96.8008 | 97.1093 | 73.8651 | 29290 | 968 | 29294 | 872 | 409 | 46.9037 | |