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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50451-50500 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | map_siren | hetalt | 87.7273 | 78.1377 | 100.0000 | 88.1671 | 193 | 54 | 51 | 0 | 0 | ||
| 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 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7317 | 98.1043 | 79.3427 | 59.5442 | 207 | 4 | 338 | 88 | 87 | 98.8636 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.7319 | 87.1393 | 88.3326 | 67.8909 | 31886 | 4706 | 32320 | 4269 | 3693 | 86.5074 | |
| ckim-isaac | INDEL | * | map_siren | het | 87.7323 | 79.7249 | 97.5278 | 80.3155 | 3594 | 914 | 3590 | 91 | 35 | 38.4615 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.7327 | 97.7687 | 79.5653 | 85.1430 | 10560 | 241 | 10653 | 2736 | 243 | 8.8816 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7339 | 100.0000 | 78.1481 | 67.6259 | 211 | 0 | 211 | 59 | 58 | 98.3051 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7417 | 84.0451 | 91.7784 | 50.9056 | 14976 | 2843 | 21221 | 1901 | 1763 | 92.7407 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 87.7419 | 78.1609 | 100.0000 | 99.8911 | 68 | 19 | 68 | 0 | 0 | ||
| gduggal-snapplat | SNP | * | map_l250_m2_e1 | het | 87.7421 | 84.4985 | 91.2446 | 94.9087 | 4448 | 816 | 4450 | 427 | 204 | 47.7752 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.7499 | 80.8367 | 95.9562 | 58.8989 | 599 | 142 | 1139 | 48 | 25 | 52.0833 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 87.7517 | 81.7259 | 94.7368 | 67.1785 | 161 | 36 | 162 | 9 | 8 | 88.8889 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 87.7527 | 90.7596 | 84.9385 | 91.1277 | 1601 | 163 | 1658 | 294 | 16 | 5.4422 | |
| qzeng-custom | SNP | tv | map_l100_m2_e1 | homalt | 87.7555 | 78.7143 | 99.1432 | 62.9833 | 7322 | 1980 | 7290 | 63 | 62 | 98.4127 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.7617 | 87.8607 | 87.6630 | 63.7323 | 883 | 122 | 874 | 123 | 103 | 83.7398 | |
| gduggal-bwafb | INDEL | I6_15 | HG002complexvar | het | 87.7628 | 80.4671 | 96.5134 | 49.2661 | 1895 | 460 | 2602 | 94 | 89 | 94.6809 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.7692 | 97.8411 | 79.5775 | 59.2240 | 13460 | 297 | 13899 | 3567 | 3388 | 94.9818 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.7692 | 97.8411 | 79.5775 | 59.2240 | 13460 | 297 | 13899 | 3567 | 3388 | 94.9818 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.7698 | 86.2191 | 89.3773 | 67.9201 | 244 | 39 | 244 | 29 | 29 | 100.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.7721 | 78.5408 | 99.4624 | 73.8764 | 183 | 50 | 185 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 87.7736 | 89.0780 | 86.5068 | 60.4550 | 1256 | 154 | 2526 | 394 | 302 | 76.6497 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7766 | 78.8618 | 98.9637 | 70.5793 | 194 | 52 | 191 | 2 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7770 | 94.3694 | 82.0455 | 74.5958 | 419 | 25 | 361 | 79 | 28 | 35.4430 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | * | 87.7776 | 87.6611 | 87.8944 | 56.9502 | 7822 | 1101 | 7856 | 1082 | 151 | 13.9556 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 87.7794 | 88.9764 | 86.6142 | 67.2680 | 113 | 14 | 110 | 17 | 11 | 64.7059 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7796 | 92.4607 | 83.5496 | 48.0211 | 7763 | 633 | 7725 | 1521 | 1474 | 96.9099 | |
| jmaeng-gatk | SNP | tv | map_l125_m2_e0 | het | 87.7835 | 81.0668 | 95.7136 | 88.2752 | 8465 | 1977 | 8463 | 379 | 12 | 3.1662 | |
| ghariani-varprowl | INDEL | * | map_l250_m2_e0 | * | 87.7841 | 93.3535 | 82.8418 | 98.1723 | 309 | 22 | 309 | 64 | 12 | 18.7500 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | homalt | 87.7858 | 78.5523 | 99.4792 | 55.9352 | 14108 | 3852 | 13944 | 73 | 71 | 97.2603 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 87.7870 | 78.7671 | 99.1398 | 19.4107 | 460 | 124 | 461 | 4 | 4 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 87.7886 | 91.4554 | 84.4045 | 45.0390 | 974 | 91 | 3572 | 660 | 647 | 98.0303 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 87.7895 | 79.0971 | 98.6283 | 41.6540 | 1279 | 338 | 1510 | 21 | 19 | 90.4762 | |
| ckim-gatk | SNP | tv | map_l125_m2_e0 | het | 87.7913 | 80.8849 | 95.9873 | 88.0575 | 8446 | 1996 | 8444 | 353 | 14 | 3.9660 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | het | 87.7958 | 95.6522 | 81.1321 | 96.3322 | 44 | 2 | 43 | 10 | 4 | 40.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 87.7974 | 81.4329 | 95.2411 | 80.6685 | 7570 | 1726 | 3002 | 150 | 102 | 68.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 87.7988 | 86.5556 | 89.0781 | 44.8149 | 17827 | 2769 | 18620 | 2283 | 1417 | 62.0675 | |
| ckim-dragen | INDEL | * | map_l150_m2_e1 | hetalt | 87.8049 | 78.2609 | 100.0000 | 95.4774 | 18 | 5 | 18 | 0 | 0 | ||
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.8049 | 78.2609 | 100.0000 | 87.5000 | 54 | 15 | 1 | 0 | 0 | ||
| qzeng-custom | INDEL | I16_PLUS | segdup | homalt | 87.8049 | 100.0000 | 78.2609 | 90.9091 | 19 | 0 | 18 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | I6_15 | tech_badpromoters | het | 87.8049 | 85.7143 | 90.0000 | 37.5000 | 6 | 1 | 9 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l125_m1_e0 | het | 87.8049 | 90.0000 | 85.7143 | 97.5917 | 18 | 2 | 18 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l125_m2_e0 | het | 87.8049 | 90.0000 | 85.7143 | 97.6770 | 18 | 2 | 18 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l125_m2_e1 | het | 87.8049 | 90.0000 | 85.7143 | 97.6923 | 18 | 2 | 18 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l125_m2_e0 | het | 87.8049 | 90.0000 | 85.7143 | 97.6325 | 18 | 2 | 18 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l125_m2_e1 | het | 87.8049 | 90.0000 | 85.7143 | 97.6796 | 18 | 2 | 18 | 3 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 87.8049 | 78.2609 | 100.0000 | 58.7786 | 54 | 15 | 54 | 0 | 0 | ||
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 87.8049 | 78.2609 | 100.0000 | 75.0000 | 18 | 5 | 20 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | homalt | 87.8083 | 81.1828 | 95.6113 | 86.4773 | 302 | 70 | 305 | 14 | 13 | 92.8571 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.8092 | 82.7619 | 93.5122 | 40.8038 | 869 | 181 | 3416 | 237 | 233 | 98.3122 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 87.8108 | 78.3843 | 99.8145 | 76.5550 | 1077 | 297 | 1076 | 2 | 2 | 100.0000 | |