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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10401-10450 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.4724 | 100.0000 | 89.5238 | 67.9878 | 188 | 0 | 188 | 22 | 21 | 95.4545 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 37.7984 | 31.9149 | 46.3415 | 77.5956 | 15 | 32 | 19 | 22 | 21 | 95.4545 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 60.7229 | 93.3333 | 45.0000 | 76.4706 | 14 | 1 | 18 | 22 | 21 | 95.4545 | |
| gduggal-snapvard | SNP | tv | segdup | homalt | 98.3768 | 97.4676 | 99.3031 | 90.1749 | 3156 | 82 | 3135 | 22 | 21 | 95.4545 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.8567 | 85.0746 | 86.6532 | 64.3732 | 855 | 150 | 857 | 132 | 126 | 95.4545 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.8588 | 70.1897 | 92.6174 | 71.9397 | 259 | 110 | 276 | 22 | 21 | 95.4545 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 55.9562 | 40.2810 | 91.6031 | 29.1892 | 688 | 1020 | 240 | 22 | 21 | 95.4545 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 75.4062 | 69.0323 | 83.0769 | 78.2609 | 107 | 48 | 108 | 22 | 21 | 95.4545 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.4086 | 85.9259 | 81.0345 | 77.5629 | 116 | 19 | 94 | 22 | 21 | 95.4545 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.0580 | 85.1852 | 81.0345 | 77.6062 | 115 | 20 | 94 | 22 | 21 | 95.4545 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | homalt | 99.0678 | 100.0000 | 98.1528 | 62.7696 | 1169 | 0 | 1169 | 22 | 21 | 95.4545 | |
| dgrover-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 89.2587 | 99.2593 | 81.0888 | 59.0856 | 402 | 3 | 283 | 66 | 63 | 95.4545 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.0580 | 85.1852 | 81.0345 | 77.8626 | 115 | 20 | 94 | 22 | 21 | 95.4545 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.4086 | 85.9259 | 81.0345 | 77.7778 | 116 | 19 | 94 | 22 | 21 | 95.4545 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.8642 | 98.5648 | 91.4314 | 69.9321 | 32759 | 477 | 33260 | 3117 | 2975 | 95.4443 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8684 | 99.6256 | 98.1226 | 58.6142 | 11441 | 43 | 11446 | 219 | 209 | 95.4338 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 27.6970 | 19.6607 | 46.8447 | 68.8822 | 197 | 805 | 193 | 219 | 209 | 95.4338 | |
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | het | 84.7743 | 95.1923 | 76.4117 | 58.8552 | 2970 | 150 | 2977 | 919 | 877 | 95.4298 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6437 | 99.1903 | 96.1445 | 69.5777 | 4410 | 36 | 4364 | 175 | 167 | 95.4286 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.4970 | 97.1756 | 97.8206 | 52.8939 | 10769 | 313 | 10772 | 240 | 229 | 95.4167 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.7321 | 22.6516 | 58.9793 | 55.7780 | 1565 | 5344 | 1537 | 1069 | 1020 | 95.4163 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 68.4389 | 86.7948 | 56.4917 | 55.1969 | 1400 | 213 | 1388 | 1069 | 1020 | 95.4163 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8560 | 99.1874 | 98.5268 | 58.9697 | 7324 | 60 | 7290 | 109 | 104 | 95.4128 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 45.1124 | 44.6159 | 45.6200 | 29.5676 | 1330 | 1651 | 1880 | 2241 | 2138 | 95.4038 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8420 | 95.6294 | 98.0857 | 58.9442 | 41441 | 1894 | 41248 | 805 | 768 | 95.4037 | |
| 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 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6109 | 99.4340 | 97.8014 | 61.3838 | 3865 | 22 | 3870 | 87 | 83 | 95.4023 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 45.8313 | 30.1293 | 95.7115 | 55.2632 | 4147 | 9617 | 5825 | 261 | 249 | 95.4023 | |
| 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 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.7760 | 98.8184 | 92.9153 | 39.9217 | 2258 | 27 | 2282 | 174 | 166 | 95.4023 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.7925 | 91.4973 | 96.2058 | 58.9950 | 2206 | 205 | 2206 | 87 | 83 | 95.4023 | |
| asubramanian-gatk | INDEL | D6_15 | HG002compoundhet | hetalt | 96.1166 | 93.5100 | 98.8728 | 25.0680 | 7622 | 529 | 7631 | 87 | 83 | 95.4023 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 55.0228 | 69.6517 | 45.4722 | 29.4037 | 420 | 183 | 1868 | 2240 | 2137 | 95.4018 | |
| asubramanian-gatk | INDEL | D6_15 | HG002compoundhet | * | 94.5808 | 93.8213 | 95.3528 | 36.4670 | 8473 | 558 | 8474 | 413 | 394 | 95.3995 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 44.2793 | 38.8052 | 51.5516 | 63.0411 | 1546 | 2438 | 1545 | 1452 | 1385 | 95.3857 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2203 | 97.7012 | 98.7450 | 60.3971 | 30686 | 722 | 30686 | 390 | 372 | 95.3846 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2203 | 97.7012 | 98.7450 | 60.3971 | 30686 | 722 | 30686 | 390 | 372 | 95.3846 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.5901 | 96.7267 | 96.4539 | 49.3016 | 3546 | 120 | 3536 | 130 | 124 | 95.3846 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.9169 | 99.3027 | 98.5341 | 69.1612 | 4415 | 31 | 4369 | 65 | 62 | 95.3846 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.5560 | 97.8984 | 93.3230 | 31.2914 | 559 | 12 | 2418 | 173 | 165 | 95.3757 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.2389 | 96.5856 | 93.9292 | 78.7201 | 1669 | 59 | 1671 | 108 | 103 | 95.3704 | |
| gduggal-bwafb | INDEL | I1_5 | HG002compoundhet | * | 88.8259 | 85.0923 | 92.9023 | 63.5931 | 10514 | 1842 | 11309 | 864 | 824 | 95.3704 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.4564 | 98.1618 | 96.7610 | 58.8376 | 16127 | 302 | 16132 | 540 | 515 | 95.3704 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 73.9195 | 72.9786 | 74.8850 | 67.4004 | 14495 | 5367 | 14485 | 4858 | 4633 | 95.3685 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0710 | 97.8937 | 98.2489 | 60.0570 | 15709 | 338 | 15710 | 280 | 267 | 95.3571 | |
| ciseli-custom | INDEL | D16_PLUS | HG002compoundhet | * | 6.2397 | 5.0406 | 8.1875 | 34.9864 | 118 | 2223 | 117 | 1312 | 1251 | 95.3506 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.0490 | 51.5152 | 84.6429 | 72.1393 | 238 | 224 | 237 | 43 | 41 | 95.3488 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.5549 | 95.7315 | 99.4491 | 28.9744 | 7715 | 344 | 7762 | 43 | 41 | 95.3488 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.5549 | 95.7315 | 99.4491 | 28.9744 | 7715 | 344 | 7762 | 43 | 41 | 95.3488 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.5345 | 98.6462 | 98.4232 | 60.5868 | 2696 | 37 | 2684 | 43 | 41 | 95.3488 | |