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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3651-3700 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 43.8042 | 29.8151 | 82.5243 | 69.3041 | 1709 | 4023 | 1700 | 360 | 316 | 87.7778 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| astatham-gatk | INDEL | I1_5 | HG002compoundhet | * | 96.1407 | 94.9417 | 97.3704 | 66.4075 | 11731 | 625 | 11738 | 317 | 315 | 99.3691 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | het | 82.9422 | 78.7616 | 87.5915 | 48.3471 | 1361 | 367 | 6939 | 983 | 315 | 32.0448 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.4534 | 92.3513 | 94.5822 | 43.0987 | 9611 | 796 | 14228 | 815 | 315 | 38.6503 | |
| raldana-dualsentieon | INDEL | I6_15 | HG002compoundhet | homalt | 16.3588 | 100.0000 | 8.9080 | 58.9623 | 31 | 0 | 31 | 317 | 315 | 99.3691 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 84.5016 | 90.8408 | 78.9894 | 50.4937 | 1210 | 122 | 1188 | 316 | 315 | 99.6835 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4585 | 97.1390 | 97.7802 | 53.9739 | 14362 | 423 | 14360 | 326 | 315 | 96.6258 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1679 | 96.6993 | 97.6410 | 51.8960 | 13330 | 455 | 13328 | 322 | 315 | 97.8261 | |
| eyeh-varpipe | INDEL | * | HG002compoundhet | hetalt | 52.4540 | 35.9293 | 97.1234 | 60.7545 | 9047 | 16133 | 10973 | 325 | 315 | 96.9231 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0004 | 95.5487 | 96.4564 | 45.2361 | 9037 | 421 | 9037 | 332 | 315 | 94.8795 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 46.8255 | 38.7947 | 59.0491 | 58.6382 | 1030 | 1625 | 1155 | 801 | 315 | 39.3258 | |
| gduggal-bwaplat | INDEL | * | HG002complexvar | homalt | 93.8564 | 89.6215 | 98.5114 | 56.9159 | 24222 | 2805 | 24155 | 365 | 314 | 86.0274 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 81.0947 | 69.5121 | 97.3091 | 55.1710 | 11612 | 5093 | 11608 | 321 | 314 | 97.8193 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 81.0947 | 69.5121 | 97.3091 | 55.1710 | 11612 | 5093 | 11608 | 321 | 314 | 97.8193 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.5750 | 99.7860 | 89.8811 | 59.7231 | 2798 | 6 | 2798 | 315 | 314 | 99.6825 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.1348 | 99.7788 | 90.9039 | 60.3967 | 3158 | 7 | 3158 | 316 | 314 | 99.3671 | |
| qzeng-custom | SNP | * | map_l250_m1_e0 | * | 74.6091 | 62.6419 | 92.2286 | 95.4856 | 4524 | 2698 | 4486 | 378 | 314 | 83.0688 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.3211 | 96.9895 | 97.6551 | 52.0760 | 13370 | 415 | 13368 | 321 | 314 | 97.8193 | |
| egarrison-hhga | INDEL | I6_15 | HG002compoundhet | * | 93.4351 | 91.3742 | 95.5910 | 34.6214 | 8019 | 757 | 8022 | 370 | 313 | 84.5946 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0147 | 91.6982 | 94.3696 | 64.0306 | 5578 | 505 | 5464 | 326 | 313 | 96.0123 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.5452 | 72.3383 | 88.3470 | 65.9371 | 2942 | 1125 | 3025 | 399 | 313 | 78.4461 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.6117 | 94.0740 | 95.1557 | 42.5447 | 6334 | 399 | 6325 | 322 | 313 | 97.2050 | |
| hfeng-pmm3 | INDEL | * | * | het | 99.4705 | 99.1923 | 99.7504 | 58.0356 | 192565 | 1568 | 192191 | 481 | 313 | 65.0728 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 74.2906 | 94.9819 | 61.0017 | 81.9477 | 10259 | 542 | 10341 | 6611 | 313 | 4.7345 | |
| ciseli-custom | INDEL | * | map_l125_m2_e1 | * | 67.9362 | 62.5618 | 74.3207 | 90.8519 | 1392 | 833 | 1395 | 482 | 312 | 64.7303 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 45.8754 | 35.9281 | 63.4398 | 55.1086 | 360 | 642 | 616 | 355 | 312 | 87.8873 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 89.7973 | 90.4000 | 89.2026 | 69.9879 | 2712 | 288 | 2875 | 348 | 312 | 89.6552 | |
| raldana-dualsentieon | INDEL | D1_5 | * | * | 99.4299 | 99.1168 | 99.7450 | 58.6151 | 145449 | 1296 | 145501 | 372 | 312 | 83.8710 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 38.9035 | 36.0279 | 42.2780 | 67.7158 | 361 | 641 | 438 | 598 | 312 | 52.1739 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.6434 | 24.0260 | 32.5431 | 70.1799 | 148 | 468 | 151 | 313 | 312 | 99.6805 | |
| jpowers-varprowl | SNP | * | map_siren | het | 98.0429 | 97.8328 | 98.2539 | 63.2948 | 89019 | 1972 | 89021 | 1582 | 312 | 19.7219 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 60.3133 | 55.2921 | 66.3376 | 42.9617 | 653 | 528 | 672 | 341 | 312 | 91.4956 | |
| ciseli-custom | INDEL | * | map_l100_m2_e0 | het | 73.2740 | 70.9580 | 75.7464 | 88.9861 | 1637 | 670 | 1649 | 528 | 311 | 58.9015 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 68.1729 | 96.6574 | 52.6555 | 45.4921 | 347 | 12 | 347 | 312 | 311 | 99.6795 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 70.1273 | 67.6890 | 72.7479 | 71.4311 | 3465 | 1654 | 3529 | 1322 | 311 | 23.5250 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 41.5500 | 37.4241 | 46.6984 | 73.3990 | 2220 | 3712 | 2256 | 2575 | 311 | 12.0777 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 45.1741 | 82.9268 | 31.0421 | 68.1047 | 136 | 28 | 140 | 311 | 310 | 99.6785 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 52.7646 | 70.1389 | 42.2890 | 66.9445 | 202 | 86 | 436 | 595 | 310 | 52.1008 | |
| gduggal-snapvard | SNP | * | map_l125_m2_e1 | het | 91.4989 | 96.9163 | 86.6551 | 82.4293 | 28726 | 914 | 28383 | 4371 | 310 | 7.0922 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | * | 67.7061 | 62.3406 | 74.0821 | 90.8144 | 1369 | 827 | 1372 | 480 | 310 | 64.5833 | |
| qzeng-custom | SNP | * | map_l250_m2_e1 | het | 76.4225 | 66.2804 | 90.2293 | 96.3549 | 3489 | 1775 | 3463 | 375 | 310 | 82.6667 | |
| qzeng-custom | SNP | * | map_l250_m2_e0 | het | 76.2572 | 66.0955 | 90.1111 | 96.3398 | 3433 | 1761 | 3408 | 374 | 309 | 82.6203 | |
| 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 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1247 | 99.5589 | 96.7314 | 45.9773 | 9479 | 42 | 9470 | 320 | 309 | 96.5625 | |
| gduggal-snapfb | INDEL | D1_5 | HG002complexvar | homalt | 96.3093 | 96.7164 | 95.9056 | 58.3612 | 10250 | 348 | 10283 | 439 | 309 | 70.3872 | |
| gduggal-snapvard | INDEL | * | segdup | * | 85.3233 | 85.0548 | 85.5935 | 95.1733 | 2174 | 382 | 2430 | 409 | 309 | 75.5501 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 55.2529 | 51.8248 | 59.1667 | 72.9556 | 497 | 462 | 497 | 343 | 309 | 90.0875 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | * | 96.7706 | 94.9266 | 98.6878 | 59.5666 | 28440 | 1520 | 28503 | 379 | 309 | 81.5303 | |