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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72551-72600 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 51.9644 | 35.2064 | 99.1674 | 46.2264 | 3352 | 6169 | 3335 | 28 | 25 | 89.2857 | |
| eyeh-varpipe | SNP | * | map_siren | homalt | 99.8931 | 99.8749 | 99.9112 | 54.6593 | 55087 | 69 | 52905 | 47 | 25 | 53.1915 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002compoundhet | het | 83.1185 | 71.8519 | 98.5755 | 24.7427 | 291 | 114 | 1730 | 25 | 25 | 100.0000 | |
| gduggal-bwavard | SNP | * | map_l100_m2_e0 | homalt | 98.6138 | 97.3767 | 99.8826 | 62.7969 | 26801 | 722 | 26381 | 31 | 25 | 80.6452 | |
| gduggal-bwavard | SNP | * | map_l100_m2_e1 | homalt | 98.6017 | 97.3521 | 99.8837 | 62.7989 | 27060 | 736 | 26631 | 31 | 25 | 80.6452 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 38.7097 | 93.8796 | 0 | 0 | 24 | 38 | 25 | 65.7895 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002compoundhet | hetalt | 28.4846 | 16.7531 | 95.0298 | 30.9066 | 323 | 1605 | 478 | 25 | 25 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e0 | homalt | 97.3783 | 98.5270 | 96.2560 | 85.4148 | 602 | 9 | 797 | 31 | 25 | 80.6452 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 77.8216 | 78.3784 | 77.2727 | 72.3618 | 58 | 16 | 85 | 25 | 25 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 33.5518 | 21.9101 | 71.5909 | 58.0952 | 39 | 139 | 63 | 25 | 25 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m2_e1 | * | 76.1809 | 68.1034 | 86.4322 | 76.0241 | 79 | 37 | 172 | 27 | 25 | 92.5926 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 43.7892 | 42.5926 | 45.0549 | 82.5000 | 46 | 62 | 41 | 50 | 25 | 50.0000 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e1 | * | 98.0431 | 97.7147 | 98.3737 | 89.9899 | 4960 | 116 | 4960 | 82 | 25 | 30.4878 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002compoundhet | * | 77.8953 | 64.5023 | 98.3073 | 45.7436 | 1510 | 831 | 1510 | 26 | 25 | 96.1538 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | het | 98.8845 | 98.7179 | 99.0517 | 59.4483 | 3080 | 40 | 3029 | 29 | 25 | 86.2069 | |
| jpowers-varprowl | SNP | tv | map_l125_m1_e0 | homalt | 98.9113 | 98.4471 | 99.3798 | 71.3800 | 5769 | 91 | 5769 | 36 | 25 | 69.4444 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e0 | homalt | 98.9229 | 98.4544 | 99.3960 | 73.5628 | 5924 | 93 | 5924 | 36 | 25 | 69.4444 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e1 | homalt | 98.9247 | 98.4524 | 99.4016 | 73.5688 | 5980 | 94 | 5980 | 36 | 25 | 69.4444 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0384 | 94.9067 | 99.2681 | 58.6918 | 6000 | 322 | 5968 | 44 | 25 | 56.8182 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0384 | 94.9067 | 99.2681 | 58.6918 | 6000 | 322 | 5968 | 44 | 25 | 56.8182 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0313 | 89.5336 | 99.0048 | 44.4125 | 2438 | 285 | 2487 | 25 | 25 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.3833 | 94.7646 | 98.0583 | 61.6187 | 2516 | 139 | 2525 | 50 | 25 | 50.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0815 | 99.5612 | 98.6064 | 70.5927 | 28586 | 126 | 28586 | 404 | 25 | 6.1881 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0815 | 99.5612 | 98.6064 | 70.5927 | 28586 | 126 | 28586 | 404 | 25 | 6.1881 | |
| jli-custom | SNP | ti | map_l125_m0_e0 | het | 98.6256 | 98.1363 | 99.1199 | 71.4709 | 8109 | 154 | 8109 | 72 | 25 | 34.7222 | |
| jli-custom | SNP | tv | map_l100_m0_e0 | * | 99.0774 | 98.8271 | 99.3290 | 64.5356 | 10954 | 130 | 10954 | 74 | 25 | 33.7838 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3694 | 95.3108 | 99.5190 | 31.4561 | 5183 | 255 | 5172 | 25 | 25 | 100.0000 | |
| jmaeng-gatk | SNP | tv | map_siren | het | 94.8661 | 92.5932 | 97.2533 | 75.2567 | 26490 | 2119 | 26485 | 748 | 25 | 3.3423 | |
| jpowers-varprowl | INDEL | * | map_siren | homalt | 94.9463 | 91.6384 | 98.5020 | 74.3563 | 2433 | 222 | 2433 | 37 | 25 | 67.5676 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.3123 | 89.9408 | 70.9302 | 81.7410 | 152 | 17 | 61 | 25 | 25 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.4486 | 97.4071 | 99.5127 | 25.8925 | 5297 | 141 | 5309 | 26 | 25 | 96.1538 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5369 | 96.2764 | 98.8308 | 48.6037 | 2870 | 111 | 2874 | 34 | 25 | 73.5294 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.7503 | 87.5000 | 90.0369 | 78.1275 | 252 | 36 | 244 | 27 | 25 | 92.5926 | |
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | homalt | 99.5372 | 99.3119 | 99.7635 | 66.3061 | 10969 | 76 | 10969 | 26 | 25 | 96.1538 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.7288 | 90.2597 | 95.3368 | 64.7810 | 556 | 60 | 552 | 27 | 25 | 92.5926 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.3984 | 95.9444 | 96.8568 | 59.7281 | 828 | 35 | 832 | 27 | 25 | 92.5926 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e1 | het | 76.0958 | 77.0370 | 75.1773 | 80.9202 | 104 | 31 | 106 | 35 | 25 | 71.4286 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 79.4582 | 83.0189 | 76.1905 | 81.2500 | 88 | 18 | 80 | 25 | 25 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 76.3374 | 62.0495 | 99.1738 | 31.6467 | 2961 | 1811 | 3001 | 25 | 25 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m1_e0 | * | 61.2987 | 46.6403 | 89.3939 | 82.1138 | 236 | 270 | 236 | 28 | 25 | 89.2857 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e0 | * | 61.4412 | 46.8208 | 89.3382 | 85.2734 | 243 | 276 | 243 | 29 | 25 | 86.2069 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e1 | * | 61.8989 | 47.2693 | 89.6429 | 85.3403 | 251 | 280 | 251 | 29 | 25 | 86.2069 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 89.5255 | 86.7232 | 92.5150 | 65.8836 | 307 | 47 | 309 | 25 | 25 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8464 | 98.6772 | 97.0296 | 69.0281 | 19320 | 259 | 19501 | 597 | 25 | 4.1876 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8464 | 98.6772 | 97.0296 | 69.0281 | 19320 | 259 | 19501 | 597 | 25 | 4.1876 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.0394 | 97.9699 | 98.1089 | 39.1064 | 1303 | 27 | 1297 | 25 | 25 | 100.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8830 | 98.6107 | 99.1567 | 58.6659 | 3407 | 48 | 3410 | 29 | 25 | 86.2069 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4656 | 99.3180 | 99.6136 | 37.1650 | 6699 | 46 | 6703 | 26 | 25 | 96.1538 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1521 | 97.1677 | 99.1567 | 66.2396 | 4700 | 137 | 4703 | 40 | 25 | 62.5000 | |
| ndellapenna-hhga | SNP | ti | map_l100_m0_e0 | * | 99.0443 | 98.2959 | 99.8041 | 65.3402 | 21400 | 371 | 21401 | 42 | 25 | 59.5238 | |