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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26801-26850 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.3761 | 95.8604 | 98.9406 | 51.0374 | 36333 | 1569 | 36144 | 387 | 350 | 90.4393 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5490 | 95.8600 | 99.2985 | 63.8541 | 5094 | 220 | 5096 | 36 | 30 | 83.3333 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.4342 | 95.8599 | 97.0154 | 57.1729 | 27090 | 1170 | 27077 | 833 | 772 | 92.6771 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e0 | het | 94.5055 | 95.8599 | 93.1889 | 86.1907 | 1204 | 52 | 1204 | 88 | 61 | 69.3182 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.2828 | 95.8599 | 98.7486 | 72.8116 | 903 | 39 | 868 | 11 | 7 | 63.6364 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.8438 | 95.8592 | 97.8488 | 71.3186 | 4792 | 207 | 4776 | 105 | 68 | 64.7619 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.8438 | 95.8592 | 97.8488 | 71.3186 | 4792 | 207 | 4776 | 105 | 68 | 64.7619 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.0103 | 95.8580 | 64.3564 | 80.8712 | 162 | 7 | 65 | 36 | 36 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 73.3937 | 95.8580 | 59.4595 | 79.8913 | 162 | 7 | 66 | 45 | 45 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6338 | 95.8574 | 99.4771 | 65.4659 | 15411 | 666 | 15411 | 81 | 71 | 87.6543 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6338 | 95.8574 | 99.4771 | 65.4659 | 15411 | 666 | 15411 | 81 | 71 | 87.6543 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3901 | 95.8574 | 98.9725 | 68.4554 | 15411 | 666 | 15412 | 160 | 118 | 73.7500 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3901 | 95.8574 | 98.9725 | 68.4554 | 15411 | 666 | 15412 | 160 | 118 | 73.7500 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e1 | * | 95.4029 | 95.8569 | 94.9533 | 91.2223 | 509 | 22 | 508 | 27 | 7 | 25.9259 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.5249 | 95.8559 | 99.2531 | 52.1381 | 7078 | 306 | 7043 | 53 | 40 | 75.4717 | |
| 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 | |
| gduggal-bwavard | SNP | tv | map_l250_m0_e0 | homalt | 97.1129 | 95.8549 | 98.4043 | 93.6955 | 185 | 8 | 185 | 3 | 2 | 66.6667 | |
| cchapple-custom | SNP | ti | map_l125_m0_e0 | * | 96.3333 | 95.8549 | 96.8166 | 76.6174 | 12233 | 529 | 12226 | 402 | 120 | 29.8507 | |
| 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 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.0497 | 95.8548 | 96.2454 | 43.3162 | 3908 | 169 | 3922 | 153 | 80 | 52.2876 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4449 | 95.8541 | 99.0894 | 62.1020 | 2312 | 100 | 2394 | 22 | 17 | 77.2727 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.2212 | 95.8530 | 98.6289 | 40.6591 | 5686 | 246 | 5683 | 79 | 58 | 73.4177 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.4462 | 95.8525 | 91.1578 | 42.6611 | 1872 | 81 | 1866 | 181 | 162 | 89.5028 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e1 | * | 91.8807 | 95.8513 | 88.2259 | 89.6373 | 1109 | 48 | 1109 | 148 | 28 | 18.9189 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m1_e0 | het | 97.3679 | 95.8506 | 98.9339 | 85.2423 | 462 | 20 | 464 | 5 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m1_e0 | het | 94.3674 | 95.8506 | 92.9293 | 85.6812 | 462 | 20 | 460 | 35 | 5 | 14.2857 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.4244 | 95.8506 | 97.0051 | 52.0671 | 13213 | 572 | 13215 | 408 | 385 | 94.3627 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l150_m0_e0 | * | 96.5157 | 95.8478 | 97.1930 | 90.6741 | 277 | 12 | 277 | 8 | 3 | 37.5000 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m0_e0 | * | 88.6400 | 95.8478 | 82.4405 | 93.2094 | 277 | 12 | 277 | 59 | 6 | 10.1695 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m0_e0 | * | 83.0230 | 95.8478 | 73.2252 | 92.0420 | 277 | 12 | 361 | 132 | 21 | 15.9091 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7912 | 95.8467 | 99.8163 | 67.9237 | 5977 | 259 | 5977 | 11 | 9 | 81.8182 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 97.8793 | 95.8466 | 100.0000 | 31.3501 | 300 | 13 | 300 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.5768 | 95.8462 | 99.3711 | 22.4390 | 623 | 27 | 632 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 95.8456 | 0.0000 | 0.0000 | 6529 | 283 | 0 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | * | 96.2042 | 95.8452 | 96.5660 | 76.1103 | 18893 | 819 | 18897 | 672 | 348 | 51.7857 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.9684 | 95.8443 | 92.1644 | 78.1320 | 1453 | 63 | 1435 | 122 | 17 | 13.9344 | |
| jpowers-varprowl | INDEL | D1_5 | map_l125_m2_e1 | het | 94.7368 | 95.8442 | 93.6548 | 88.7251 | 738 | 32 | 738 | 50 | 27 | 54.0000 | |
| gduggal-snapvard | SNP | tv | map_l150_m1_e0 | homalt | 97.7764 | 95.8439 | 99.7884 | 71.1912 | 3782 | 164 | 3772 | 8 | 6 | 75.0000 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e1 | het | 96.4360 | 95.8433 | 97.0362 | 82.0973 | 12474 | 541 | 12474 | 381 | 131 | 34.3832 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | hetalt | 97.6303 | 95.8410 | 99.4878 | 26.1770 | 7812 | 339 | 7769 | 40 | 40 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.5547 | 95.8398 | 93.3037 | 33.3744 | 622 | 27 | 2522 | 181 | 173 | 95.5801 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7292 | 95.8398 | 80.8843 | 58.8109 | 622 | 27 | 622 | 147 | 141 | 95.9184 | |
| ndellapenna-hhga | SNP | ti | map_l250_m0_e0 | * | 97.5483 | 95.8394 | 99.3192 | 91.9956 | 1313 | 57 | 1313 | 9 | 4 | 44.4444 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | * | 97.5483 | 95.8394 | 99.3192 | 90.4686 | 1313 | 57 | 1313 | 9 | 7 | 77.7778 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e1 | homalt | 97.7665 | 95.8394 | 99.7728 | 73.2888 | 3962 | 172 | 3952 | 9 | 7 | 77.7778 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.3350 | 95.8393 | 98.8782 | 52.0725 | 36325 | 1577 | 36139 | 410 | 384 | 93.6585 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6447 | 95.8388 | 99.5199 | 88.8259 | 1451 | 63 | 1451 | 7 | 7 | 100.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0949 | 95.8388 | 73.3424 | 87.1802 | 1451 | 63 | 1073 | 390 | 39 | 10.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e0 | het | 96.2025 | 95.8386 | 96.5693 | 87.1089 | 760 | 33 | 760 | 27 | 3 | 11.1111 | |
| gduggal-snapfb | SNP | ti | map_l125_m0_e0 | het | 95.0321 | 95.8369 | 94.2408 | 72.9383 | 7919 | 344 | 7920 | 484 | 255 | 52.6860 | |