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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3301-3350 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 90.7380 | 98.6175 | 84.0244 | 38.7433 | 1926 | 27 | 1925 | 366 | 364 | 99.4536 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 86.9441 | 95.3611 | 79.8924 | 72.5785 | 1624 | 79 | 1633 | 411 | 364 | 88.5645 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.5334 | 83.2452 | 76.1384 | 70.7854 | 2047 | 412 | 2090 | 655 | 364 | 55.5725 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | het | 71.0849 | 85.8491 | 60.6538 | 92.0278 | 2548 | 420 | 2542 | 1649 | 363 | 22.0133 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.0890 | 20.6844 | 39.2387 | 39.7707 | 272 | 1043 | 268 | 415 | 363 | 87.4699 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002compoundhet | het | 55.6184 | 84.9383 | 41.3462 | 47.6949 | 344 | 61 | 258 | 366 | 363 | 99.1803 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | homalt | 95.8338 | 95.7466 | 95.9213 | 42.3182 | 12876 | 572 | 12817 | 545 | 363 | 66.6055 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 40.0585 | 36.9961 | 43.6736 | 81.3091 | 3111 | 5298 | 3179 | 4100 | 363 | 8.8537 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 37.1500 | 27.9605 | 55.3371 | 59.9550 | 595 | 1533 | 591 | 477 | 362 | 75.8910 | |
| cchapple-custom | SNP | ti | map_siren | het | 98.0329 | 98.5813 | 97.4906 | 61.4640 | 61497 | 885 | 61538 | 1584 | 362 | 22.8535 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 78.8703 | 94.8102 | 67.5188 | 69.4075 | 9189 | 503 | 9350 | 4498 | 362 | 8.0480 | |
| gduggal-bwaplat | SNP | tv | HG002complexvar | * | 97.3488 | 95.7603 | 98.9909 | 25.1801 | 235716 | 10436 | 235930 | 2405 | 362 | 15.0520 | |
| qzeng-custom | INDEL | I16_PLUS | * | * | 83.4199 | 82.9387 | 83.9068 | 61.2425 | 5289 | 1088 | 5292 | 1015 | 362 | 35.6650 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.7893 | 98.0137 | 97.5659 | 71.4911 | 30150 | 611 | 30142 | 752 | 362 | 48.1383 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.0210 | 92.7552 | 83.7467 | 49.6639 | 2535 | 198 | 2195 | 426 | 362 | 84.9765 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1121 | 98.7732 | 95.5059 | 60.7561 | 8293 | 103 | 8288 | 390 | 362 | 92.8205 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.7876 | 99.0041 | 85.5516 | 65.0041 | 2187 | 22 | 2179 | 368 | 361 | 98.0978 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002complexvar | * | 59.4403 | 51.7955 | 69.7324 | 50.7211 | 851 | 792 | 834 | 362 | 361 | 99.7238 | |
| mlin-fermikit | INDEL | I6_15 | HG002complexvar | * | 88.7918 | 85.8097 | 91.9886 | 56.6838 | 4112 | 680 | 4191 | 365 | 361 | 98.9041 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.9826 | 99.7269 | 96.2982 | 53.7111 | 9495 | 26 | 9495 | 365 | 360 | 98.6301 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5538 | 96.1694 | 98.9788 | 57.8031 | 41675 | 1660 | 41482 | 428 | 360 | 84.1121 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e1 | * | 93.3986 | 91.2649 | 95.6344 | 83.1005 | 15202 | 1455 | 15203 | 694 | 360 | 51.8732 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002compoundhet | * | 16.3932 | 10.4060 | 38.6054 | 37.9092 | 223 | 1920 | 227 | 361 | 360 | 99.7230 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.5839 | 81.3183 | 83.8895 | 82.0997 | 2159 | 496 | 2187 | 420 | 360 | 85.7143 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | * | 93.3644 | 91.2184 | 95.6138 | 83.0664 | 15041 | 1448 | 15041 | 690 | 359 | 52.0290 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.4883 | 82.5826 | 59.9782 | 80.9276 | 550 | 116 | 550 | 367 | 359 | 97.8202 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.4883 | 82.5826 | 59.9782 | 80.9276 | 550 | 116 | 550 | 367 | 359 | 97.8202 | |
| gduggal-snapplat | SNP | * | * | homalt | 99.3703 | 98.8374 | 99.9089 | 19.1469 | 1166442 | 13720 | 1166214 | 1063 | 359 | 33.7723 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | * | 95.8880 | 94.8263 | 96.9738 | 65.9095 | 11602 | 633 | 11600 | 362 | 359 | 99.1713 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3348 | 98.9955 | 97.6830 | 71.3901 | 17640 | 179 | 17243 | 409 | 359 | 87.7751 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.3846 | 71.4286 | 23.5174 | 34.4504 | 115 | 46 | 115 | 374 | 359 | 95.9893 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0947 | 92.4215 | 93.7777 | 64.0101 | 5622 | 461 | 5501 | 365 | 358 | 98.0822 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1423 | 98.9601 | 97.3379 | 67.2353 | 14465 | 152 | 14077 | 385 | 358 | 92.9870 | |
| jlack-gatk | SNP | * | map_siren | * | 98.0143 | 99.3920 | 96.6743 | 64.0744 | 145339 | 889 | 145316 | 4999 | 358 | 7.1614 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1076 | 98.6776 | 99.5414 | 71.9967 | 93200 | 1249 | 93118 | 429 | 358 | 83.4499 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 73.1196 | 89.0957 | 62.0019 | 58.7223 | 670 | 82 | 669 | 410 | 358 | 87.3171 | |
| gduggal-snapplat | SNP | * | map_l150_m0_e0 | * | 89.5961 | 85.5219 | 94.0779 | 88.4577 | 10290 | 1742 | 10294 | 648 | 357 | 55.0926 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | * | 77.9452 | 82.2472 | 74.0709 | 86.1595 | 3433 | 741 | 3428 | 1200 | 357 | 29.7500 | |
| jlack-gatk | INDEL | * | HG002complexvar | * | 99.2231 | 99.0863 | 99.3603 | 58.0205 | 76235 | 703 | 76113 | 490 | 357 | 72.8571 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 49.3293 | 79.5367 | 35.7513 | 30.4087 | 206 | 53 | 207 | 372 | 357 | 95.9677 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 58.5125 | 78.4461 | 46.6568 | 31.7444 | 313 | 86 | 314 | 359 | 357 | 99.4429 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 93.4281 | 91.8537 | 95.0573 | 78.9460 | 41979 | 3723 | 41502 | 2158 | 356 | 16.4968 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 93.4281 | 91.8537 | 95.0573 | 78.9460 | 41979 | 3723 | 41502 | 2158 | 356 | 16.4968 | |
| gduggal-snapplat | INDEL | I1_5 | * | homalt | 83.6103 | 76.4695 | 92.2220 | 62.8436 | 46209 | 14219 | 46704 | 3939 | 356 | 9.0378 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | * | 46.6065 | 33.3972 | 77.1018 | 65.0425 | 1394 | 2780 | 1394 | 414 | 356 | 85.9903 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | homalt | 51.4655 | 44.9548 | 60.1815 | 60.0161 | 597 | 731 | 597 | 395 | 356 | 90.1266 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2837 | 99.7301 | 96.8787 | 61.7262 | 11453 | 31 | 11453 | 369 | 356 | 96.4770 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 39.9506 | 39.3669 | 40.5518 | 64.0084 | 485 | 747 | 485 | 711 | 356 | 50.0703 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 37.6387 | 31.0491 | 47.7790 | 58.0455 | 367 | 815 | 441 | 482 | 356 | 73.8589 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 50.1083 | 46.0897 | 54.8947 | 70.8664 | 442 | 517 | 443 | 364 | 355 | 97.5275 | |