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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
701-750 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 67.5308 | 74.8546 | 61.5124 | 50.8317 | 4376 | 1470 | 8728 | 5461 | 4703 | 86.1198 | |
| gduggal-snapvard | SNP | * | HG002compoundhet | * | 79.9672 | 80.6669 | 79.2796 | 52.8107 | 20829 | 4992 | 20864 | 5453 | 2407 | 44.1408 | |
| ghariani-varprowl | SNP | * | HG002complexvar | het | 99.2312 | 99.6262 | 98.8393 | 22.3346 | 463752 | 1740 | 464023 | 5449 | 138 | 2.5326 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 51.2305 | 44.8305 | 59.7622 | 50.2699 | 7922 | 9749 | 8093 | 5449 | 4223 | 77.5005 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 51.2305 | 44.8305 | 59.7622 | 50.2699 | 7922 | 9749 | 8093 | 5449 | 4223 | 77.5005 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 77.1866 | 71.6422 | 83.6612 | 80.1878 | 23811 | 9425 | 27896 | 5448 | 1746 | 32.0485 | |
| jpowers-varprowl | INDEL | D1_5 | HG002compoundhet | het | 35.3608 | 87.3843 | 22.1650 | 69.9316 | 1510 | 218 | 1550 | 5443 | 5389 | 99.0079 | |
| ghariani-varprowl | INDEL | D6_15 | HG002compoundhet | het | 22.6701 | 91.4720 | 12.9384 | 39.2155 | 783 | 73 | 808 | 5437 | 5400 | 99.3195 | |
| gduggal-bwafb | INDEL | * | * | * | 96.9474 | 95.5004 | 98.4390 | 56.3888 | 329039 | 15503 | 342492 | 5431 | 4691 | 86.3745 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 53.5870 | 96.7318 | 37.0581 | 53.6813 | 3167 | 107 | 3187 | 5413 | 5386 | 99.5012 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 52.4956 | 98.0106 | 35.8482 | 76.1642 | 2956 | 60 | 3022 | 5408 | 61 | 1.1280 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 49.4454 | 86.5913 | 34.6019 | 50.3848 | 2835 | 439 | 2855 | 5396 | 5373 | 99.5738 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.1186 | 81.3959 | 71.4838 | 54.5214 | 12828 | 2932 | 13489 | 5381 | 2743 | 50.9757 | |
| gduggal-snapfb | SNP | ti | HG002compoundhet | * | 85.8670 | 98.1291 | 76.3290 | 43.9481 | 17151 | 327 | 17345 | 5379 | 340 | 6.3209 | |
| jpowers-varprowl | INDEL | D6_15 | HG002compoundhet | het | 21.3553 | 84.1121 | 12.2302 | 37.5281 | 720 | 136 | 748 | 5368 | 5337 | 99.4225 | |
| ghariani-varprowl | INDEL | * | HG002complexvar | het | 93.2466 | 97.4941 | 89.3538 | 59.7893 | 45053 | 1158 | 45020 | 5364 | 4472 | 83.3706 | |
| ciseli-custom | INDEL | D1_5 | HG002compoundhet | homalt | 8.4350 | 85.5670 | 4.4361 | 66.5215 | 249 | 42 | 249 | 5364 | 5004 | 93.2886 | |
| ciseli-custom | SNP | * | map_l100_m2_e1 | het | 81.9772 | 77.3999 | 87.1298 | 75.6982 | 36299 | 10599 | 36219 | 5350 | 161 | 3.0094 | |
| ciseli-custom | SNP | * | map_l100_m2_e0 | het | 81.8850 | 77.2883 | 87.0629 | 75.7023 | 35861 | 10538 | 35782 | 5317 | 161 | 3.0280 | |
| gduggal-snapvard | SNP | * | HG002compoundhet | het | 77.1322 | 83.8682 | 71.3978 | 57.2411 | 11890 | 2287 | 13270 | 5316 | 2307 | 43.3973 | |
| anovak-vg | SNP | ti | map_l100_m0_e0 | * | 81.1499 | 85.0168 | 77.6195 | 74.1271 | 18509 | 3262 | 18364 | 5295 | 1408 | 26.5911 | |
| gduggal-bwaplat | SNP | ti | HG002complexvar | * | 97.9838 | 97.0464 | 98.9394 | 19.5056 | 493419 | 15017 | 493754 | 5293 | 700 | 13.2250 | |
| mlin-fermikit | SNP | * | HG002complexvar | * | 98.2239 | 97.1863 | 99.2840 | 18.6883 | 733159 | 21226 | 733074 | 5287 | 5014 | 94.8364 | |
| anovak-vg | INDEL | I6_15 | * | homalt | 61.4755 | 80.7661 | 49.6232 | 33.6435 | 5039 | 1200 | 5202 | 5281 | 4685 | 88.7143 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | het | 62.3220 | 85.8085 | 48.9296 | 57.3342 | 3513 | 581 | 5051 | 5272 | 5065 | 96.0736 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 42.4373 | 41.1000 | 43.8645 | 68.7909 | 4140 | 5933 | 4118 | 5270 | 4818 | 91.4231 | |
| ciseli-custom | INDEL | D6_15 | * | homalt | 66.6499 | 91.7325 | 52.3387 | 51.6724 | 5803 | 523 | 5785 | 5268 | 4853 | 92.1222 | |
| anovak-vg | SNP | * | map_l125_m0_e0 | * | 79.0837 | 83.3789 | 75.2094 | 80.8664 | 16163 | 3222 | 15982 | 5268 | 1460 | 27.7145 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 64.2360 | 57.8454 | 72.2140 | 63.0306 | 10562 | 7697 | 13647 | 5251 | 3074 | 58.5412 | |
| anovak-vg | SNP | ti | map_l100_m0_e0 | het | 78.0640 | 88.2071 | 70.0131 | 76.8266 | 12334 | 1649 | 12260 | 5251 | 1367 | 26.0331 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 54.1148 | 85.3960 | 39.6066 | 69.0608 | 3450 | 590 | 3443 | 5250 | 4800 | 91.4286 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.9906 | 94.9155 | 89.2405 | 50.9643 | 16913 | 906 | 43453 | 5239 | 3113 | 59.4197 | |
| ciseli-custom | SNP | * | map_l100_m1_e0 | het | 81.6533 | 76.9704 | 86.9429 | 74.2795 | 34913 | 10446 | 34838 | 5232 | 159 | 3.0390 | |
| anovak-vg | SNP | * | map_l125_m0_e0 | het | 76.4858 | 87.7448 | 67.7876 | 82.7028 | 11112 | 1552 | 11006 | 5230 | 1427 | 27.2849 | |
| anovak-vg | SNP | * | HG002compoundhet | * | 78.0620 | 76.6207 | 79.5586 | 43.6697 | 19785 | 6037 | 20297 | 5215 | 3696 | 70.8725 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 40.2265 | 37.0781 | 43.9591 | 50.2516 | 4109 | 6973 | 4086 | 5209 | 5192 | 99.6736 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 68.0107 | 68.2833 | 67.7403 | 40.7190 | 3914 | 1818 | 10936 | 5208 | 4870 | 93.5100 | |
| gduggal-bwafb | SNP | ti | * | * | 99.8083 | 99.8659 | 99.7507 | 20.3177 | 2082722 | 2796 | 2082858 | 5206 | 495 | 9.5083 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 54.7290 | 97.4954 | 38.0419 | 50.8575 | 3192 | 82 | 3194 | 5202 | 5186 | 99.6924 | |
| ghariani-varprowl | INDEL | I1_5 | HG002compoundhet | het | 21.0205 | 76.7059 | 12.1791 | 72.5111 | 652 | 198 | 721 | 5199 | 5126 | 98.5959 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 94.0417 | 99.3129 | 89.3019 | 78.9695 | 45388 | 314 | 43340 | 5192 | 210 | 4.0447 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 94.0417 | 99.3129 | 89.3019 | 78.9695 | 45388 | 314 | 43340 | 5192 | 210 | 4.0447 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 89.0223 | 86.9300 | 91.2178 | 68.3628 | 41962 | 6309 | 53834 | 5183 | 1886 | 36.3882 | |
| eyeh-varpipe | INDEL | I1_5 | * | * | 94.9923 | 93.5665 | 96.4622 | 53.4954 | 140971 | 9693 | 141103 | 5175 | 4944 | 95.5362 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 43.5285 | 42.1324 | 45.0202 | 75.7921 | 4244 | 5829 | 4231 | 5167 | 5021 | 97.1744 | |
| gduggal-bwaplat | SNP | ti | HG002complexvar | het | 97.7064 | 97.0801 | 98.3410 | 19.6959 | 305575 | 9191 | 306161 | 5165 | 589 | 11.4037 | |
| gduggal-bwavard | SNP | tv | * | * | 99.2324 | 99.0032 | 99.4627 | 26.1679 | 960032 | 9666 | 955309 | 5161 | 1540 | 29.8392 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 75.4653 | 90.5356 | 64.6962 | 41.2162 | 1234 | 129 | 9456 | 5160 | 4823 | 93.4690 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 45.1864 | 43.7705 | 46.6970 | 66.0012 | 4409 | 5664 | 4517 | 5156 | 3623 | 70.2676 | |
| mlin-fermikit | SNP | * | HG002complexvar | homalt | 98.3225 | 98.4247 | 98.2205 | 20.7847 | 284029 | 4546 | 284043 | 5146 | 4990 | 96.9685 | |