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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66001-66050 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.6086 | 92.9919 | 94.2335 | 70.5102 | 690 | 52 | 670 | 41 | 20 | 48.7805 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 73.3215 | 58.4000 | 98.4848 | 34.0000 | 73 | 52 | 65 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | * | 97.7659 | 97.5320 | 98.0010 | 98.2503 | 2055 | 52 | 2059 | 42 | 15 | 35.7143 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.7211 | 90.1328 | 87.3529 | 74.4841 | 475 | 52 | 594 | 86 | 81 | 94.1860 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | * | 97.6927 | 97.2846 | 98.1043 | 82.7144 | 1863 | 52 | 1863 | 36 | 17 | 47.2222 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e1 | * | 97.6961 | 97.3182 | 98.0769 | 82.8076 | 1887 | 52 | 1887 | 37 | 17 | 45.9459 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m1_e0 | homalt | 99.7369 | 99.5292 | 99.9454 | 62.9489 | 10993 | 52 | 10993 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m2_e0 | homalt | 99.7442 | 99.5422 | 99.9470 | 65.7720 | 11306 | 52 | 11306 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m2_e1 | homalt | 99.7464 | 99.5462 | 99.9474 | 65.8140 | 11406 | 52 | 11407 | 6 | 6 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.1086 | 93.1759 | 97.1233 | 60.7948 | 710 | 52 | 709 | 21 | 17 | 80.9524 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0708 | 98.8304 | 99.3124 | 59.5757 | 4394 | 52 | 4333 | 30 | 22 | 73.3333 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0716 | 98.5896 | 99.5583 | 44.7023 | 3635 | 52 | 3606 | 16 | 8 | 50.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7766 | 78.8618 | 98.9637 | 70.5793 | 194 | 52 | 191 | 2 | 0 | 0.0000 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5290 | 99.4853 | 99.5728 | 52.8503 | 10050 | 52 | 10023 | 43 | 23 | 53.4884 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6831 | 99.5234 | 99.8433 | 60.8736 | 10859 | 52 | 10830 | 17 | 7 | 41.1765 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 84.0471 | 96.0902 | 74.6866 | 62.8554 | 1278 | 52 | 2800 | 949 | 275 | 28.9779 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.9826 | 70.2857 | 98.3498 | 45.7961 | 123 | 52 | 298 | 5 | 4 | 80.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4112 | 98.9838 | 99.8424 | 34.1207 | 5065 | 52 | 5068 | 8 | 8 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 63.3979 | 87.0324 | 49.8584 | 69.2241 | 349 | 52 | 352 | 354 | 346 | 97.7401 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e0 | het | 94.5055 | 95.8599 | 93.1889 | 86.1907 | 1204 | 52 | 1204 | 88 | 61 | 69.3182 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e1 | het | 94.4493 | 95.8991 | 93.0428 | 86.2663 | 1216 | 52 | 1217 | 91 | 62 | 68.1319 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m2_e1 | * | 93.7984 | 93.3162 | 94.2857 | 89.3910 | 726 | 52 | 726 | 44 | 22 | 50.0000 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | het | 96.7636 | 94.4325 | 99.2126 | 90.7809 | 882 | 52 | 882 | 7 | 5 | 71.4286 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.0184 | 98.3990 | 97.6407 | 68.5083 | 3196 | 52 | 3228 | 78 | 3 | 3.8462 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 94.7458 | 94.6281 | 94.8637 | 60.4149 | 916 | 52 | 905 | 49 | 36 | 73.4694 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m1_e0 | het | 94.1526 | 93.3076 | 95.0131 | 86.3196 | 725 | 52 | 724 | 38 | 26 | 68.4211 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3384 | 99.0709 | 97.6165 | 72.3626 | 5545 | 52 | 5529 | 135 | 121 | 89.6296 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3667 | 99.1478 | 99.5866 | 78.9281 | 6050 | 52 | 6022 | 25 | 8 | 32.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.3143 | 94.5890 | 94.0412 | 72.3901 | 909 | 52 | 868 | 55 | 49 | 89.0909 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4613 | 99.2277 | 99.6960 | 43.2493 | 6681 | 52 | 7543 | 23 | 17 | 73.9130 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m1_e0 | homalt | 78.3964 | 77.1930 | 79.6380 | 89.0810 | 176 | 52 | 176 | 45 | 36 | 80.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | homalt | 34.6359 | 22.3881 | 76.4706 | 94.6875 | 15 | 52 | 13 | 4 | 1 | 25.0000 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | homalt | 99.4476 | 99.2253 | 99.6709 | 64.2590 | 6660 | 52 | 6663 | 22 | 19 | 86.3636 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2011 | 99.7140 | 98.6934 | 41.6778 | 18131 | 52 | 18128 | 240 | 3 | 1.2500 | |
| ckim-isaac | INDEL | * | segdup | homalt | 97.0085 | 94.5833 | 99.5614 | 90.4632 | 908 | 52 | 908 | 4 | 2 | 50.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4099 | 99.4850 | 99.3350 | 55.8574 | 10045 | 52 | 9410 | 63 | 21 | 33.3333 | |
| eyeh-varpipe | INDEL | D16_PLUS | map_l100_m2_e1 | * | 58.1706 | 46.3918 | 77.9661 | 85.9857 | 45 | 52 | 46 | 13 | 12 | 92.3077 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.9602 | 93.1759 | 92.7455 | 64.5850 | 710 | 52 | 831 | 65 | 47 | 72.3077 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 38.0952 | 23.5294 | 100.0000 | 84.7826 | 16 | 52 | 28 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 38.0952 | 23.5294 | 100.0000 | 85.3535 | 16 | 52 | 29 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | * | 96.2856 | 96.1165 | 96.4552 | 81.4147 | 1287 | 52 | 2068 | 76 | 58 | 76.3158 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 75.4767 | 66.4516 | 87.3385 | 73.7805 | 103 | 52 | 338 | 49 | 46 | 93.8776 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3470 | 98.2759 | 88.8889 | 80.5601 | 2964 | 52 | 2968 | 371 | 22 | 5.9299 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 79.2739 | 93.8895 | 68.5957 | 88.9971 | 799 | 52 | 806 | 369 | 43 | 11.6531 | |
| gduggal-bwafb | SNP | tv | map_l125_m1_e0 | homalt | 99.4861 | 99.1126 | 99.8624 | 68.8267 | 5808 | 52 | 5808 | 8 | 6 | 75.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 80.1527 | 66.8790 | 100.0000 | 72.1485 | 105 | 52 | 105 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | map_siren | het | 77.4539 | 63.6364 | 98.9362 | 93.0060 | 91 | 52 | 93 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 52 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 67.2522 | 88.7931 | 54.1223 | 65.4094 | 412 | 52 | 407 | 345 | 328 | 95.0725 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.7933 | 97.8680 | 97.7188 | 57.0996 | 2387 | 52 | 2356 | 55 | 6 | 10.9091 | |