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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26551-26600 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.1619 | 95.6967 | 98.6726 | 81.7078 | 467 | 21 | 446 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6205 | 96.5909 | 98.6722 | 61.1039 | 1190 | 42 | 1189 | 16 | 15 | 93.7500 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m2_e1 | homalt | 97.4695 | 96.2963 | 98.6717 | 76.3359 | 520 | 20 | 520 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9937 | 93.4578 | 98.6711 | 50.7411 | 6457 | 452 | 6460 | 87 | 83 | 95.4023 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e0 | het | 97.0438 | 95.4693 | 98.6711 | 90.0496 | 295 | 14 | 297 | 4 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.0649 | 86.2878 | 98.6710 | 63.3131 | 3052 | 485 | 3044 | 41 | 24 | 58.5366 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8484 | 99.0268 | 98.6706 | 57.0089 | 6614 | 65 | 6606 | 89 | 88 | 98.8764 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 85.6175 | 75.6148 | 98.6702 | 63.9501 | 369 | 119 | 371 | 5 | 3 | 60.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0152 | 97.3690 | 98.6701 | 49.3437 | 14396 | 389 | 14394 | 194 | 186 | 95.8763 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1473 | 97.6302 | 98.6700 | 64.9578 | 15696 | 381 | 15802 | 213 | 56 | 26.2911 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1473 | 97.6302 | 98.6700 | 64.9578 | 15696 | 381 | 15802 | 213 | 56 | 26.2911 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002complexvar | * | 97.7900 | 96.9257 | 98.6698 | 51.5393 | 5139 | 163 | 4970 | 67 | 50 | 74.6269 | |
| ghariani-varprowl | SNP | ti | map_siren | * | 99.0024 | 99.3374 | 98.6698 | 59.6146 | 99690 | 665 | 99693 | 1344 | 247 | 18.3780 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0547 | 95.4918 | 98.6696 | 81.7778 | 466 | 22 | 445 | 6 | 1 | 16.6667 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.1550 | 90.0354 | 98.6695 | 35.2238 | 2286 | 253 | 2299 | 31 | 28 | 90.3226 | |
| bgallagher-sentieon | SNP | tv | map_l100_m2_e1 | het | 99.1255 | 99.5859 | 98.6693 | 71.4407 | 15872 | 66 | 15868 | 214 | 25 | 11.6822 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3740 | 98.0805 | 98.6692 | 39.1607 | 10526 | 206 | 10528 | 142 | 102 | 71.8310 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3377 | 96.0417 | 98.6692 | 81.4984 | 461 | 19 | 519 | 7 | 5 | 71.4286 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e1 | * | 98.0120 | 97.3635 | 98.6692 | 89.5407 | 517 | 14 | 519 | 7 | 2 | 28.5714 | |
| mlin-fermikit | SNP | ti | segdup | * | 98.0976 | 97.5329 | 98.6689 | 85.0585 | 19055 | 482 | 19051 | 257 | 86 | 33.4630 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m1_e0 | het | 97.4629 | 96.2864 | 98.6685 | 76.9451 | 2152 | 83 | 2149 | 29 | 2 | 6.8966 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 84.1772 | 73.3974 | 98.6684 | 34.6801 | 2290 | 830 | 2297 | 31 | 21 | 67.7419 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.9511 | 97.2441 | 98.6684 | 67.2767 | 741 | 21 | 741 | 10 | 7 | 70.0000 | |
| anovak-vg | SNP | ti | * | * | 98.4812 | 98.2960 | 98.6672 | 19.8346 | 2049980 | 35538 | 2043729 | 27607 | 12786 | 46.3143 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.6276 | 96.6102 | 98.6667 | 60.1064 | 57 | 2 | 74 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.2405 | 95.8549 | 98.6667 | 91.1368 | 370 | 16 | 370 | 5 | 3 | 60.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 86.5570 | 77.0950 | 98.6667 | 27.5362 | 138 | 41 | 148 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.3782 | 94.1935 | 98.6667 | 81.3665 | 146 | 9 | 148 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 98.0132 | 97.3684 | 98.6667 | 91.5636 | 148 | 4 | 148 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.6797 | 98.6928 | 98.6667 | 68.1529 | 151 | 2 | 148 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.2405 | 95.8549 | 98.6667 | 91.0990 | 370 | 16 | 370 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.2274 | 76.5734 | 98.6667 | 62.1849 | 219 | 67 | 222 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 74.4949 | 59.8361 | 98.6667 | 81.4815 | 73 | 49 | 74 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.3289 | 100.0000 | 98.6667 | 70.3557 | 5 | 0 | 74 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m0_e0 | het | 45.3988 | 29.4821 | 98.6667 | 98.9470 | 444 | 1062 | 444 | 6 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | * | map_l150_m0_e0 | homalt | 94.2675 | 90.2439 | 98.6667 | 88.4080 | 148 | 16 | 148 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | func_cds | homalt | 99.3289 | 100.0000 | 98.6667 | 21.0526 | 74 | 0 | 74 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m2_e1 | homalt | 99.0629 | 99.4624 | 98.6667 | 86.1470 | 370 | 2 | 370 | 5 | 5 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 94.4542 | 90.5866 | 98.6667 | 57.1156 | 1328 | 138 | 1332 | 18 | 5 | 27.7778 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 98.0132 | 97.3684 | 98.6667 | 91.3345 | 148 | 4 | 148 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7710 | 96.8925 | 98.6656 | 61.3340 | 30432 | 976 | 30464 | 412 | 353 | 85.6796 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7710 | 96.8925 | 98.6656 | 61.3340 | 30432 | 976 | 30464 | 412 | 353 | 85.6796 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3437 | 96.0575 | 98.6648 | 74.3831 | 2071 | 85 | 2069 | 28 | 19 | 67.8571 | |
| jmaeng-gatk | SNP | ti | func_cds | het | 99.2988 | 99.9412 | 98.6647 | 33.9419 | 8499 | 5 | 8497 | 115 | 1 | 0.8696 | |
| qzeng-custom | SNP | tv | map_l250_m1_e0 | homalt | 75.0174 | 60.5140 | 98.6641 | 89.2181 | 518 | 338 | 517 | 7 | 7 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.6641 | 98.6641 | 98.6641 | 63.0726 | 517 | 7 | 517 | 7 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m2_e0 | het | 80.2795 | 67.6702 | 98.6641 | 94.7495 | 517 | 247 | 517 | 7 | 1 | 14.2857 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e1 | * | 98.3291 | 97.9967 | 98.6638 | 88.0879 | 7827 | 160 | 7827 | 106 | 70 | 66.0377 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.8397 | 95.0820 | 98.6637 | 80.8692 | 464 | 24 | 443 | 6 | 1 | 16.6667 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6195 | 96.5975 | 98.6634 | 57.7294 | 15501 | 546 | 15502 | 210 | 201 | 95.7143 | |