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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41601-41650 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 91.2206 | 93.2203 | 89.3048 | 64.9813 | 165 | 12 | 167 | 20 | 20 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.2155 | 68.0091 | 89.3048 | 56.7130 | 2398 | 1128 | 668 | 80 | 79 | 98.7500 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 77.2155 | 68.0091 | 89.3048 | 56.7130 | 2398 | 1128 | 668 | 80 | 79 | 98.7500 | |
| 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 | |
| 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 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.5664 | 93.9498 | 89.3010 | 79.9025 | 823 | 53 | 626 | 75 | 74 | 98.6667 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 69.2265 | 56.5217 | 89.2989 | 95.0257 | 481 | 370 | 484 | 58 | 10 | 17.2414 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 84.8725 | 80.8690 | 89.2931 | 75.5803 | 4802 | 1136 | 2602 | 312 | 198 | 63.4615 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e0 | * | 77.4662 | 68.4073 | 89.2906 | 77.7912 | 1310 | 605 | 1309 | 157 | 136 | 86.6242 | |
| gduggal-snapplat | INDEL | * | map_siren | * | 79.6077 | 71.8219 | 89.2868 | 89.6136 | 5322 | 2088 | 5709 | 685 | 78 | 11.3869 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.3396 | 100.0000 | 89.2857 | 92.1127 | 25 | 0 | 25 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 69.4444 | 56.8182 | 89.2857 | 94.6463 | 25 | 19 | 25 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.3396 | 100.0000 | 89.2857 | 91.7647 | 25 | 0 | 25 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | I16_PLUS | HG002complexvar | * | 86.4583 | 83.8044 | 89.2857 | 60.9632 | 1097 | 212 | 1100 | 132 | 51 | 38.6364 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.3396 | 100.0000 | 89.2857 | 92.6893 | 25 | 0 | 25 | 3 | 2 | 66.6667 | |
| jli-custom | INDEL | * | map_l250_m0_e0 | het | 91.7431 | 94.3396 | 89.2857 | 97.4110 | 50 | 3 | 50 | 6 | 1 | 16.6667 | |
| jli-custom | INDEL | D16_PLUS | map_l100_m0_e0 | * | 89.2857 | 89.2857 | 89.2857 | 95.0000 | 25 | 3 | 25 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.3396 | 100.0000 | 89.2857 | 91.8605 | 25 | 0 | 25 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.3396 | 100.0000 | 89.2857 | 92.7273 | 25 | 0 | 25 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 65.3856 | 51.5789 | 89.2857 | 85.3018 | 49 | 46 | 50 | 6 | 2 | 33.3333 | |
| gduggal-bwafb | INDEL | D6_15 | segdup | homalt | 94.3396 | 100.0000 | 89.2857 | 93.3492 | 50 | 0 | 50 | 6 | 6 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | segdup | hetalt | 56.8182 | 41.6667 | 89.2857 | 96.7175 | 20 | 28 | 25 | 3 | 3 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m1_e0 | homalt | 80.6452 | 73.5294 | 89.2857 | 90.8497 | 25 | 9 | 25 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 83.7989 | 78.9474 | 89.2857 | 81.8182 | 15 | 4 | 25 | 3 | 3 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 83.0586 | 77.6471 | 89.2809 | 34.5471 | 660 | 190 | 658 | 79 | 79 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 87.5160 | 85.8216 | 89.2788 | 67.7054 | 914 | 151 | 916 | 110 | 41 | 37.2727 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.4707 | 95.9016 | 89.2767 | 52.5444 | 468 | 20 | 3555 | 427 | 343 | 80.3279 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 91.4289 | 93.6983 | 89.2667 | 80.9128 | 907 | 61 | 840 | 101 | 75 | 74.2574 | |
| jpowers-varprowl | INDEL | I16_PLUS | HG002complexvar | homalt | 82.6907 | 77.0227 | 89.2593 | 61.6477 | 238 | 71 | 241 | 29 | 29 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e1 | * | 77.5709 | 68.5921 | 89.2545 | 77.9440 | 1330 | 609 | 1329 | 160 | 138 | 86.2500 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.2098 | 85.2583 | 89.2527 | 52.9223 | 16934 | 2928 | 27995 | 3371 | 3181 | 94.3637 | |
| eyeh-varpipe | INDEL | * | * | homalt | 92.5348 | 96.0734 | 89.2476 | 55.4307 | 120257 | 4915 | 121109 | 14591 | 14265 | 97.7657 | |
| jmaeng-gatk | INDEL | D1_5 | map_l250_m1_e0 | * | 92.9972 | 97.0760 | 89.2473 | 96.8555 | 166 | 5 | 166 | 20 | 1 | 5.0000 | |
| 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 | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 93.1110 | 97.3366 | 89.2370 | 37.3586 | 2412 | 66 | 2421 | 292 | 5 | 1.7123 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9247 | 96.9325 | 89.2351 | 90.6242 | 316 | 10 | 315 | 38 | 12 | 31.5789 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | het | 93.8309 | 98.9295 | 89.2321 | 81.9092 | 20978 | 227 | 20974 | 2531 | 189 | 7.4674 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9837 | 67.6931 | 89.2302 | 57.8962 | 2638 | 1259 | 2643 | 319 | 317 | 99.3730 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.2388 | 99.8503 | 89.2244 | 68.0061 | 1334 | 2 | 1300 | 157 | 4 | 2.5478 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.3647 | 97.9109 | 89.2219 | 85.2038 | 1781 | 38 | 1548 | 187 | 133 | 71.1230 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.3647 | 97.9109 | 89.2219 | 85.2038 | 1781 | 38 | 1548 | 187 | 133 | 71.1230 | |
| eyeh-varpipe | INDEL | I6_15 | map_l125_m2_e0 | * | 77.1277 | 67.9245 | 89.2157 | 81.4208 | 36 | 17 | 91 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | I6_15 | map_l125_m2_e1 | * | 77.1277 | 67.9245 | 89.2157 | 81.6876 | 36 | 17 | 91 | 11 | 9 | 81.8182 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.7127 | 92.2652 | 89.2116 | 81.5184 | 334 | 28 | 215 | 26 | 26 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | HG002compoundhet | het | 93.6315 | 98.5185 | 89.2063 | 59.4595 | 399 | 6 | 281 | 34 | 31 | 91.1765 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 92.8220 | 96.7435 | 89.2061 | 36.1513 | 7011 | 236 | 7000 | 847 | 807 | 95.2774 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9804 | 74.1455 | 89.2034 | 78.7338 | 846 | 295 | 851 | 103 | 101 | 98.0583 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 89.7973 | 90.4000 | 89.2026 | 69.9879 | 2712 | 288 | 2875 | 348 | 312 | 89.6552 | |
| qzeng-custom | INDEL | * | map_l250_m2_e1 | * | 75.9087 | 66.0661 | 89.1975 | 97.9280 | 220 | 113 | 289 | 35 | 17 | 48.5714 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 66.7081 | 53.2787 | 89.1892 | 86.8093 | 65 | 57 | 66 | 8 | 8 | 100.0000 | |