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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40801-40850 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.2227 | 71.1825 | 89.3103 | 43.3419 | 4918 | 1991 | 4921 | 589 | 580 | 98.4720 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 79.2133 | 76.5550 | 82.0628 | 67.6812 | 160 | 49 | 183 | 40 | 33 | 82.5000 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.2090 | 80.0667 | 78.3696 | 91.0972 | 8648 | 2153 | 8681 | 2396 | 141 | 5.8848 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 79.2084 | 99.3671 | 65.8495 | 73.6859 | 2669 | 17 | 2713 | 1407 | 18 | 1.2793 | |
| qzeng-custom | INDEL | I6_15 | func_cds | * | 79.2079 | 93.0233 | 68.9655 | 30.1205 | 40 | 3 | 40 | 18 | 3 | 16.6667 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 79.2079 | 65.5738 | 100.0000 | 54.0984 | 40 | 21 | 28 | 0 | 0 | ||
| ciseli-custom | SNP | ti | tech_badpromoters | het | 79.2079 | 90.9091 | 70.1754 | 39.3617 | 40 | 4 | 40 | 17 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 79.2028 | 81.7073 | 76.8473 | 78.8981 | 134 | 30 | 156 | 47 | 42 | 89.3617 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 79.1991 | 87.0370 | 72.6562 | 76.5138 | 94 | 14 | 93 | 35 | 35 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.1914 | 73.9716 | 85.2037 | 51.7929 | 13181 | 4638 | 24318 | 4223 | 1294 | 30.6417 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1856 | 69.5167 | 91.9786 | 71.9640 | 187 | 82 | 172 | 15 | 8 | 53.3333 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 79.1842 | 93.5216 | 68.6585 | 57.6883 | 563 | 39 | 563 | 257 | 251 | 97.6654 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1814 | 73.6559 | 85.6031 | 65.5957 | 137 | 49 | 220 | 37 | 23 | 62.1622 | |
| ciseli-custom | INDEL | * | func_cds | het | 79.1762 | 80.8411 | 77.5785 | 43.6869 | 173 | 41 | 173 | 50 | 20 | 40.0000 | |
| gduggal-snapplat | INDEL | * | map_siren | het | 79.1743 | 73.0923 | 86.3603 | 90.4763 | 3295 | 1213 | 3552 | 561 | 54 | 9.6257 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1674 | 71.9397 | 88.0095 | 54.7793 | 1910 | 745 | 1857 | 253 | 201 | 79.4466 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.1667 | 73.0769 | 86.3636 | 95.4825 | 19 | 7 | 19 | 3 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_l150_m2_e1 | * | 79.1667 | 70.3704 | 90.4762 | 90.5830 | 19 | 8 | 19 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | map_siren | hetalt | 79.1667 | 66.6667 | 97.4359 | 82.5893 | 38 | 19 | 38 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l150_m2_e1 | homalt | 79.1667 | 65.5172 | 100.0000 | 90.2564 | 19 | 10 | 19 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | HG002complexvar | hetalt | 79.1588 | 66.5701 | 97.6190 | 80.6928 | 1149 | 577 | 1148 | 28 | 27 | 96.4286 | |
| ckim-gatk | SNP | tv | map_l150_m1_e0 | * | 79.1583 | 66.8988 | 96.9190 | 88.8068 | 7300 | 3612 | 7298 | 232 | 8 | 3.4483 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e1 | homalt | 79.1574 | 66.1111 | 98.6188 | 77.9671 | 357 | 183 | 357 | 5 | 2 | 40.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 79.1493 | 72.0787 | 87.7579 | 53.3974 | 4910 | 1902 | 638 | 89 | 89 | 100.0000 | |
| anovak-vg | SNP | ti | map_l125_m0_e0 | * | 79.1475 | 83.1766 | 75.4908 | 80.4095 | 10615 | 2147 | 10537 | 3421 | 933 | 27.2727 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 79.1466 | 70.0599 | 90.9416 | 60.7394 | 702 | 300 | 763 | 76 | 70 | 92.1053 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m1_e0 | het | 79.1426 | 66.1157 | 98.5626 | 94.6081 | 480 | 246 | 480 | 7 | 1 | 14.2857 | |
| qzeng-custom | INDEL | C1_5 | * | het | 79.1423 | 77.7778 | 80.5556 | 96.9331 | 7 | 2 | 174 | 42 | 1 | 2.3810 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m1_e0 | * | 79.1409 | 75.8621 | 82.7160 | 87.3635 | 66 | 21 | 67 | 14 | 11 | 78.5714 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 79.1393 | 65.8683 | 99.1071 | 71.1340 | 110 | 57 | 111 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l100_m0_e0 | het | 79.1367 | 91.6667 | 69.6203 | 89.0733 | 55 | 5 | 55 | 24 | 21 | 87.5000 | |
| jpowers-varprowl | INDEL | I6_15 | * | homalt | 79.1239 | 68.4565 | 93.7294 | 42.5350 | 4271 | 1968 | 4275 | 286 | 264 | 92.3077 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 79.1231 | 74.0733 | 84.9119 | 84.9242 | 3597 | 1259 | 3613 | 642 | 94 | 14.6417 | |
| egarrison-hhga | INDEL | D1_5 | HG002complexvar | hetalt | 79.1212 | 67.7515 | 95.0766 | 77.6746 | 916 | 436 | 869 | 45 | 42 | 93.3333 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.1209 | 100.0000 | 65.4545 | 84.4193 | 169 | 0 | 72 | 38 | 37 | 97.3684 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 79.1206 | 94.1309 | 68.2390 | 28.6996 | 417 | 26 | 434 | 202 | 202 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l150_m0_e0 | * | 79.1205 | 68.3277 | 93.9624 | 92.1942 | 2852 | 1322 | 2848 | 183 | 152 | 83.0601 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 79.1201 | 65.5963 | 99.6683 | 30.7692 | 572 | 300 | 601 | 2 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m0_e0 | het | 79.1195 | 85.0000 | 74.0000 | 91.9094 | 51 | 9 | 74 | 26 | 1 | 3.8462 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 79.1180 | 67.8700 | 94.8349 | 76.6136 | 8498 | 4023 | 8501 | 463 | 140 | 30.2376 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.1172 | 68.0571 | 94.4698 | 74.1440 | 1860 | 873 | 1862 | 109 | 53 | 48.6239 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m1_e0 | het | 79.1153 | 74.3590 | 84.5216 | 89.5868 | 899 | 310 | 901 | 165 | 39 | 23.6364 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.1116 | 70.1992 | 90.6162 | 65.8002 | 2855 | 1212 | 2897 | 300 | 268 | 89.3333 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.1080 | 66.2395 | 98.1818 | 59.6577 | 2533 | 1291 | 162 | 3 | 2 | 66.6667 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.1047 | 96.5517 | 66.9981 | 74.4486 | 3136 | 112 | 3167 | 1560 | 81 | 5.1923 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 79.1045 | 98.7578 | 65.9751 | 35.3887 | 159 | 2 | 159 | 82 | 82 | 100.0000 | |
| ciseli-custom | SNP | tv | map_l125_m1_e0 | * | 79.1043 | 74.1571 | 84.7587 | 76.7783 | 11877 | 4139 | 11873 | 2135 | 521 | 24.4028 | |
| gduggal-snapvard | INDEL | D6_15 | func_cds | het | 79.1035 | 82.7586 | 75.7576 | 50.7463 | 24 | 5 | 25 | 8 | 7 | 87.5000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 79.0971 | 72.2876 | 87.3228 | 83.3661 | 1106 | 424 | 1109 | 161 | 148 | 91.9255 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 79.0971 | 72.2876 | 87.3228 | 83.3661 | 1106 | 424 | 1109 | 161 | 148 | 91.9255 | |