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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43701-43750 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I16_PLUS | segdup | * | 81.9440 | 76.5957 | 88.0952 | 93.0116 | 36 | 11 | 37 | 5 | 5 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m2_e0 | * | 82.6518 | 77.8420 | 88.0952 | 95.5115 | 404 | 115 | 407 | 55 | 2 | 3.6364 | |
| jpowers-varprowl | SNP | * | tech_badpromoters | het | 91.9255 | 96.1039 | 88.0952 | 62.9956 | 74 | 3 | 74 | 10 | 1 | 10.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.8484 | 78.1915 | 88.0952 | 60.0000 | 147 | 41 | 148 | 20 | 19 | 95.0000 | |
| gduggal-snapplat | INDEL | * | * | hetalt | 51.2002 | 36.0859 | 88.1005 | 81.7746 | 9107 | 16130 | 9151 | 1236 | 915 | 74.0291 | |
| ghariani-varprowl | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0759 | 98.6453 | 88.1018 | 77.5526 | 3204 | 44 | 3221 | 435 | 34 | 7.8161 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 89.7651 | 91.4894 | 88.1046 | 61.3701 | 2021 | 188 | 2022 | 273 | 186 | 68.1319 | |
| ghariani-varprowl | INDEL | D1_5 | map_siren | het | 93.3499 | 99.2534 | 88.1092 | 86.6204 | 2260 | 17 | 2260 | 305 | 111 | 36.3934 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.1962 | 96.6768 | 88.1125 | 56.1680 | 5411 | 186 | 12282 | 1657 | 662 | 39.9517 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.7368 | 97.8723 | 88.1133 | 66.0895 | 2162 | 47 | 2209 | 298 | 219 | 73.4899 | |
| asubramanian-gatk | INDEL | * | map_l150_m0_e0 | het | 88.4846 | 88.8563 | 88.1159 | 94.8291 | 303 | 38 | 304 | 41 | 2 | 4.8781 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.8990 | 91.7526 | 88.1188 | 92.8011 | 89 | 8 | 89 | 12 | 2 | 16.6667 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.8990 | 91.7526 | 88.1188 | 95.6893 | 89 | 8 | 89 | 12 | 4 | 33.3333 | |
| jmaeng-gatk | INDEL | I1_5 | segdup | het | 93.2743 | 99.0706 | 88.1188 | 96.5876 | 533 | 5 | 534 | 72 | 0 | 0.0000 | |
| ciseli-custom | SNP | tv | map_l100_m0_e0 | homalt | 86.8291 | 85.5694 | 88.1265 | 64.0732 | 3291 | 555 | 3288 | 443 | 348 | 78.5553 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | homalt | 81.6095 | 75.9878 | 88.1295 | 56.7652 | 250 | 79 | 245 | 33 | 30 | 90.9091 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.6206 | 97.5940 | 88.1295 | 86.9820 | 649 | 16 | 490 | 66 | 61 | 92.4242 | |
| cchapple-custom | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 88.1356 | 86.5143 | 0 | 0 | 104 | 14 | 5 | 35.7143 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 70.4102 | 58.6207 | 88.1356 | 99.8947 | 51 | 36 | 52 | 7 | 6 | 85.7143 | |
| hfeng-pmm3 | INDEL | * | map_l250_m0_e0 | het | 92.8571 | 98.1132 | 88.1356 | 97.2861 | 52 | 1 | 52 | 7 | 1 | 14.2857 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.5762 | 95.2963 | 88.1356 | 47.4691 | 3120 | 154 | 2808 | 378 | 341 | 90.2116 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e0 | * | 90.5115 | 93.0138 | 88.1404 | 88.0002 | 3435 | 258 | 3441 | 463 | 191 | 41.2527 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.5291 | 86.9258 | 88.1409 | 52.6080 | 19341 | 2909 | 20149 | 2711 | 1465 | 54.0391 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.0964 | 94.2553 | 88.1423 | 65.1755 | 443 | 27 | 446 | 60 | 58 | 96.6667 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m2_e1 | * | 90.6674 | 93.3333 | 88.1496 | 86.2733 | 1302 | 93 | 1815 | 244 | 114 | 46.7213 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m0_e0 | het | 92.3077 | 96.8750 | 88.1517 | 92.7937 | 186 | 6 | 186 | 25 | 5 | 20.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 84.0961 | 80.3922 | 88.1579 | 92.2449 | 82 | 20 | 67 | 9 | 2 | 22.2222 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | het | 92.8051 | 97.9602 | 88.1654 | 84.8061 | 18922 | 394 | 18699 | 2510 | 124 | 4.9402 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 70.9431 | 59.3496 | 88.1657 | 78.6885 | 146 | 100 | 149 | 20 | 9 | 45.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.3991 | 97.0540 | 88.1703 | 71.9469 | 593 | 18 | 559 | 75 | 71 | 94.6667 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 90.5371 | 93.0336 | 88.1711 | 73.4829 | 1883 | 141 | 1938 | 260 | 97 | 37.3077 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 88.8337 | 89.5000 | 88.1773 | 74.9692 | 179 | 21 | 179 | 24 | 8 | 33.3333 | |
| gduggal-snapplat | INDEL | D6_15 | HG002complexvar | hetalt | 48.9308 | 33.8598 | 88.1797 | 67.9303 | 343 | 670 | 373 | 50 | 39 | 78.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 91.5094 | 95.0980 | 88.1818 | 60.7143 | 97 | 5 | 97 | 13 | 8 | 61.5385 | |
| ciseli-custom | SNP | tv | map_l150_m1_e0 | homalt | 85.3488 | 82.6913 | 88.1828 | 71.9082 | 3263 | 683 | 3261 | 437 | 339 | 77.5744 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m1_e0 | * | 90.7660 | 93.5026 | 88.1850 | 85.4828 | 1252 | 87 | 1754 | 235 | 108 | 45.9574 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m2_e1 | * | 82.8676 | 78.1544 | 88.1857 | 95.5224 | 415 | 116 | 418 | 56 | 2 | 3.5714 | |
| ckim-isaac | INDEL | D16_PLUS | HG002compoundhet | * | 81.7142 | 76.1213 | 88.1941 | 27.9899 | 1782 | 559 | 1763 | 236 | 205 | 86.8644 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | het | 83.2254 | 78.7865 | 88.1944 | 75.0570 | 24126 | 6496 | 24100 | 3226 | 86 | 2.6658 | |
| ghariani-varprowl | INDEL | * | map_l100_m2_e1 | * | 90.3178 | 92.5453 | 88.1950 | 92.4782 | 3476 | 280 | 3474 | 465 | 216 | 46.4516 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m1_e0 | * | 82.5979 | 77.6680 | 88.1960 | 95.0708 | 393 | 113 | 396 | 53 | 2 | 3.7736 | |
| gduggal-snapplat | INDEL | D1_5 | segdup | het | 86.5545 | 84.9711 | 88.1980 | 96.8115 | 588 | 104 | 695 | 93 | 8 | 8.6022 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.4567 | 75.6715 | 88.1998 | 59.8076 | 12143 | 3904 | 12273 | 1642 | 1435 | 87.3934 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.9887 | 87.7705 | 88.2080 | 78.0159 | 933 | 130 | 950 | 127 | 70 | 55.1181 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 24.7522 | 14.3959 | 88.2086 | 64.5213 | 392 | 2331 | 389 | 52 | 41 | 78.8462 | |
| ckim-gatk | INDEL | * | map_l250_m2_e0 | * | 92.5287 | 97.2810 | 88.2192 | 97.2498 | 322 | 9 | 322 | 43 | 4 | 9.3023 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.4470 | 65.9048 | 88.2202 | 66.0139 | 692 | 358 | 689 | 92 | 70 | 76.0870 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.3850 | 94.7826 | 88.2225 | 88.3133 | 2507 | 138 | 2442 | 326 | 84 | 25.7669 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e1 | * | 91.8807 | 95.8513 | 88.2259 | 89.6373 | 1109 | 48 | 1109 | 148 | 28 | 18.9189 | |
| gduggal-bwavard | SNP | tv | map_l125_m1_e0 | het | 93.0274 | 98.3804 | 88.2269 | 82.2633 | 9962 | 164 | 9937 | 1326 | 63 | 4.7511 | |