PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43101-43150 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.2409 | 95.9430 | 86.9781 | 77.5847 | 875 | 37 | 875 | 131 | 121 | 92.3664 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.8647 | 90.8347 | 86.9783 | 67.1961 | 555 | 56 | 521 | 78 | 77 | 98.7179 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 65.7529 | 52.8540 | 86.9801 | 38.4187 | 963 | 859 | 481 | 72 | 43 | 59.7222 | |
| ciseli-custom | SNP | tv | map_l100_m1_e0 | * | 82.8010 | 79.0049 | 86.9802 | 71.6783 | 19357 | 5144 | 19347 | 2896 | 701 | 24.2058 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e1 | * | 58.3031 | 43.8450 | 86.9877 | 65.8089 | 9086 | 11637 | 9085 | 1359 | 1198 | 88.1531 | |
| gduggal-snapfb | INDEL | D6_15 | * | hetalt | 74.5835 | 65.2679 | 87.0010 | 49.2731 | 5335 | 2839 | 850 | 127 | 126 | 99.2126 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.4085 | 98.5294 | 87.0036 | 79.8311 | 1206 | 18 | 1205 | 180 | 12 | 6.6667 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e0 | het | 92.5331 | 98.8057 | 87.0093 | 88.9275 | 1241 | 15 | 1219 | 182 | 48 | 26.3736 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.0289 | 75.8175 | 87.0096 | 52.5248 | 997 | 318 | 998 | 149 | 131 | 87.9195 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.2767 | 81.7073 | 87.0130 | 73.5395 | 67 | 15 | 67 | 10 | 10 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m0_e0 | * | 81.2121 | 76.1364 | 87.0130 | 96.7157 | 134 | 42 | 134 | 20 | 1 | 5.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 56.5401 | 41.8750 | 87.0130 | 90.2900 | 67 | 93 | 67 | 10 | 3 | 30.0000 | |
| gduggal-snapplat | INDEL | * | map_l125_m1_e0 | het | 80.6812 | 75.2060 | 87.0161 | 93.7402 | 1004 | 331 | 1079 | 161 | 24 | 14.9068 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.9526 | 84.9119 | 87.0190 | 57.3989 | 1784 | 317 | 1696 | 253 | 247 | 97.6285 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 84.8154 | 82.7107 | 87.0300 | 49.4577 | 9166 | 1916 | 9166 | 1366 | 1354 | 99.1215 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.6857 | 66.9578 | 87.0301 | 80.4555 | 460 | 227 | 463 | 69 | 64 | 92.7536 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 89.5949 | 92.3077 | 87.0370 | 80.0738 | 48 | 4 | 47 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.2143 | 91.5033 | 87.0370 | 76.6234 | 140 | 13 | 141 | 21 | 16 | 76.1905 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m1_e0 | het | 82.4561 | 78.3333 | 87.0370 | 97.7070 | 47 | 13 | 47 | 7 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 93.0693 | 100.0000 | 87.0370 | 48.0769 | 47 | 0 | 47 | 7 | 7 | 100.0000 | |
| gduggal-snapfb | INDEL | I6_15 | * | homalt | 78.8948 | 72.1430 | 87.0410 | 39.6459 | 4501 | 1738 | 4480 | 667 | 645 | 96.7016 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.8529 | 99.4937 | 87.0432 | 60.7107 | 2358 | 12 | 2358 | 351 | 351 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_l125_m1_e0 | het | 91.5438 | 96.5345 | 87.0437 | 81.1544 | 17633 | 633 | 17501 | 2605 | 206 | 7.9079 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.9774 | 95.2756 | 87.0504 | 53.0405 | 121 | 6 | 121 | 18 | 15 | 83.3333 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 70.1373 | 58.7236 | 87.0583 | 47.6620 | 6082 | 4275 | 6061 | 901 | 793 | 88.0133 | |
| 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 | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 91.8784 | 97.2530 | 87.0667 | 62.6011 | 2372 | 67 | 2336 | 347 | 10 | 2.8818 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e0 | het | 91.4027 | 96.1905 | 87.0690 | 97.8055 | 202 | 8 | 202 | 30 | 2 | 6.6667 | |
| ciseli-custom | INDEL | D16_PLUS | * | het | 73.2078 | 63.1529 | 87.0708 | 54.9379 | 1995 | 1164 | 2054 | 305 | 262 | 85.9016 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.4140 | 30.7174 | 87.0736 | 43.4900 | 1460 | 3293 | 1455 | 216 | 197 | 91.2037 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.7864 | 97.0356 | 87.0760 | 55.5089 | 8118 | 248 | 8112 | 1204 | 1184 | 98.3389 | |
| gduggal-bwavard | INDEL | I1_5 | * | het | 92.1214 | 97.7872 | 87.0762 | 61.9735 | 77292 | 1749 | 76863 | 11408 | 10744 | 94.1795 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.7363 | 86.3984 | 87.0769 | 60.8804 | 27136 | 4272 | 28091 | 4169 | 1922 | 46.1022 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.7363 | 86.3984 | 87.0769 | 60.8804 | 27136 | 4272 | 28091 | 4169 | 1922 | 46.1022 | |
| ghariani-varprowl | INDEL | * | map_l100_m0_e0 | * | 90.4000 | 93.9859 | 87.0777 | 93.2660 | 1469 | 94 | 1469 | 218 | 66 | 30.2752 | |
| ghariani-varprowl | INDEL | * | * | * | 87.2025 | 87.3272 | 87.0781 | 72.0067 | 300877 | 43663 | 300632 | 44612 | 40345 | 90.4353 | |
| ciseli-custom | SNP | tv | map_l100_m2_e0 | * | 83.0120 | 79.3073 | 87.0798 | 73.4407 | 19853 | 5180 | 19842 | 2944 | 713 | 24.2188 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 56.9333 | 42.2920 | 87.0801 | 78.6542 | 310 | 423 | 337 | 50 | 17 | 34.0000 | |
| gduggal-snapplat | INDEL | * | map_l150_m0_e0 | * | 78.7001 | 71.7899 | 87.0824 | 96.1959 | 369 | 145 | 391 | 58 | 10 | 17.2414 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 89.4328 | 91.9075 | 87.0879 | 78.1250 | 318 | 28 | 317 | 47 | 8 | 17.0213 | |
| ghariani-varprowl | INDEL | D1_5 | segdup | het | 92.8475 | 99.4220 | 87.0886 | 96.1448 | 688 | 4 | 688 | 102 | 61 | 59.8039 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m1_e0 | * | 93.1034 | 100.0000 | 87.0968 | 94.5133 | 27 | 0 | 27 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m2_e0 | * | 93.1034 | 100.0000 | 87.0968 | 95.2888 | 27 | 0 | 27 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m2_e1 | * | 91.5254 | 96.4286 | 87.0968 | 95.4210 | 27 | 1 | 27 | 4 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 70.7177 | 59.5238 | 87.0968 | 98.6964 | 25 | 17 | 27 | 4 | 3 | 75.0000 | |
| jpowers-varprowl | INDEL | D6_15 | func_cds | het | 90.0000 | 93.1034 | 87.0968 | 53.0303 | 27 | 2 | 27 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l125_m1_e0 | * | 93.1034 | 100.0000 | 87.0968 | 95.7182 | 27 | 0 | 27 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m1_e0 | het | 89.2562 | 91.5254 | 87.0968 | 90.7186 | 54 | 5 | 54 | 8 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l125_m2_e0 | * | 93.1034 | 100.0000 | 87.0968 | 96.9578 | 27 | 0 | 27 | 4 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l125_m2_e1 | * | 91.5254 | 96.4286 | 87.0968 | 97.0363 | 27 | 1 | 27 | 4 | 0 | 0.0000 | |