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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46951-47000 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 74.0703 | 72.3684 | 75.8542 | 64.2217 | 660 | 252 | 666 | 212 | 139 | 65.5660 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 45.4191 | 32.4145 | 75.8496 | 67.6203 | 1858 | 3874 | 1674 | 533 | 342 | 64.1651 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 0.0000 | 75.8389 | 94.4299 | 0 | 0 | 113 | 36 | 34 | 94.4444 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 55.7305 | 44.0570 | 75.8202 | 34.2652 | 1731 | 2198 | 1872 | 597 | 591 | 98.9950 | |
| anovak-vg | SNP | * | map_l125_m1_e0 | * | 81.0489 | 87.0673 | 75.8087 | 74.5245 | 39465 | 5862 | 39018 | 12451 | 2766 | 22.2151 | |
| gduggal-bwavard | INDEL | D6_15 | map_l150_m2_e1 | het | 86.2385 | 100.0000 | 75.8065 | 94.4395 | 47 | 0 | 47 | 15 | 11 | 73.3333 | |
| ciseli-custom | INDEL | I6_15 | * | het | 44.4423 | 31.4363 | 75.8046 | 53.6729 | 3154 | 6879 | 3227 | 1030 | 925 | 89.8058 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e0 | homalt | 61.2628 | 51.4049 | 75.7986 | 61.3196 | 3915 | 3701 | 3915 | 1250 | 1181 | 94.4800 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002complexvar | * | 68.3069 | 62.1849 | 75.7660 | 65.1794 | 814 | 495 | 816 | 261 | 254 | 97.3180 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 70.9466 | 66.7041 | 75.7654 | 53.5142 | 10704 | 5343 | 10864 | 3475 | 3422 | 98.4748 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 47.2065 | 34.2838 | 75.7645 | 57.3941 | 1022 | 1959 | 991 | 317 | 53 | 16.7192 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 23.5294 | 13.9276 | 75.7576 | 73.7052 | 50 | 309 | 50 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D6_15 | func_cds | het | 79.1035 | 82.7586 | 75.7576 | 50.7463 | 24 | 5 | 25 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D6_15 | map_l150_m0_e0 | * | 75.3769 | 75.0000 | 75.7576 | 93.5421 | 24 | 8 | 25 | 8 | 6 | 75.0000 | |
| ckim-gatk | INDEL | * | map_l250_m0_e0 | * | 84.7458 | 96.1538 | 75.7576 | 98.3736 | 75 | 3 | 75 | 24 | 2 | 8.3333 | |
| ckim-dragen | INDEL | D16_PLUS | map_l125_m2_e0 | * | 83.3333 | 92.5926 | 75.7576 | 97.6035 | 25 | 2 | 25 | 8 | 1 | 12.5000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 84.5297 | 95.6092 | 75.7515 | 51.0570 | 2613 | 120 | 2999 | 960 | 935 | 97.3958 | |
| ciseli-custom | INDEL | * | map_l100_m2_e0 | het | 73.2740 | 70.9580 | 75.7464 | 88.9861 | 1637 | 670 | 1649 | 528 | 311 | 58.9015 | |
| jpowers-varprowl | INDEL | D6_15 | HG002complexvar | het | 82.3223 | 90.1603 | 75.7381 | 57.2412 | 2813 | 307 | 2822 | 904 | 873 | 96.5708 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | * | 70.6710 | 66.2407 | 75.7364 | 88.0952 | 2488 | 1268 | 2494 | 799 | 531 | 66.4581 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 75.3156 | 74.9046 | 75.7313 | 50.0285 | 2943 | 986 | 3314 | 1062 | 550 | 51.7891 | |
| qzeng-custom | INDEL | D16_PLUS | HG002compoundhet | het | 84.4943 | 95.5556 | 75.7282 | 32.4836 | 387 | 18 | 2106 | 675 | 234 | 34.6667 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e0 | homalt | 71.5076 | 67.7588 | 75.6955 | 81.9979 | 517 | 246 | 517 | 166 | 143 | 86.1446 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 74.6805 | 73.6967 | 75.6909 | 58.8837 | 4962 | 1771 | 4957 | 1592 | 1522 | 95.6030 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.4522 | 98.1108 | 75.6868 | 87.8606 | 779 | 15 | 551 | 177 | 16 | 9.0396 | |
| gduggal-bwavard | INDEL | I1_5 | map_l250_m1_e0 | het | 84.2439 | 95.0000 | 75.6757 | 97.2253 | 57 | 3 | 56 | 18 | 4 | 22.2222 | |
| gduggal-snapvard | SNP | tv | tech_badpromoters | het | 80.0000 | 84.8485 | 75.6757 | 60.6383 | 28 | 5 | 28 | 9 | 1 | 11.1111 | |
| qzeng-custom | INDEL | D6_15 | map_siren | het | 82.9558 | 91.7857 | 75.6757 | 84.8504 | 257 | 23 | 364 | 117 | 17 | 14.5299 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 82.2869 | 90.1639 | 75.6757 | 85.4331 | 55 | 6 | 56 | 18 | 11 | 61.1111 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 82.2869 | 90.1639 | 75.6757 | 84.0173 | 55 | 6 | 56 | 18 | 12 | 66.6667 | |
| ckim-isaac | INDEL | I16_PLUS | HG002complexvar | het | 58.4929 | 47.6692 | 75.6757 | 61.6761 | 317 | 348 | 308 | 99 | 23 | 23.2323 | |
| ciseli-custom | INDEL | * | map_l100_m1_e0 | * | 70.4613 | 65.9230 | 75.6705 | 87.5050 | 2364 | 1222 | 2370 | 762 | 504 | 66.1417 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.9078 | 94.1790 | 75.6567 | 81.6542 | 5873 | 363 | 5818 | 1872 | 118 | 6.3034 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | het | 73.2415 | 70.9774 | 75.6549 | 89.0075 | 1663 | 680 | 1675 | 539 | 319 | 59.1837 | |
| anovak-vg | INDEL | D6_15 | HG002complexvar | homalt | 78.9062 | 82.4636 | 75.6430 | 56.5846 | 964 | 205 | 1000 | 322 | 233 | 72.3602 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m2_e1 | het | 84.8921 | 96.7213 | 75.6410 | 96.9838 | 118 | 4 | 118 | 38 | 3 | 7.8947 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 68.7222 | 62.9630 | 75.6410 | 66.6667 | 17 | 10 | 59 | 19 | 12 | 63.1579 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 86.1314 | 100.0000 | 75.6410 | 73.7374 | 59 | 0 | 59 | 19 | 19 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 73.5287 | 71.5370 | 75.6345 | 65.0089 | 377 | 150 | 298 | 96 | 96 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | HG002compoundhet | het | 83.5162 | 93.2692 | 75.6098 | 84.8597 | 194 | 14 | 155 | 50 | 46 | 92.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l125_m0_e0 | * | 62.5473 | 53.3333 | 75.6098 | 92.9188 | 8 | 7 | 31 | 10 | 1 | 10.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 84.9390 | 96.8944 | 75.6098 | 24.9084 | 156 | 5 | 155 | 50 | 50 | 100.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 72.0930 | 68.8889 | 75.6098 | 76.1628 | 31 | 14 | 31 | 10 | 10 | 100.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_siren | het | 45.1091 | 32.1429 | 75.6098 | 90.5093 | 90 | 190 | 62 | 20 | 2 | 10.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.9231 | 51.0140 | 75.6098 | 42.2535 | 327 | 314 | 124 | 40 | 40 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 79.8568 | 84.6127 | 75.6070 | 64.0420 | 4850 | 882 | 3394 | 1095 | 247 | 22.5571 | |
| gduggal-snapplat | INDEL | I1_5 | func_cds | * | 72.3894 | 69.4444 | 75.5952 | 55.4377 | 125 | 55 | 127 | 41 | 1 | 2.4390 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.6648 | 84.2067 | 75.5878 | 57.5613 | 9352 | 1754 | 9484 | 3063 | 1008 | 32.9089 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m2_e1 | het | 82.8025 | 91.5493 | 75.5814 | 91.2779 | 65 | 6 | 65 | 21 | 20 | 95.2381 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | het | 85.4186 | 98.2094 | 75.5757 | 89.1583 | 713 | 13 | 919 | 297 | 91 | 30.6397 | |