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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71151-71200 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6822 | 99.3902 | 90.4000 | 87.6847 | 163 | 1 | 113 | 12 | 10 | 83.3333 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5131 | 99.4163 | 99.6101 | 78.2596 | 1533 | 9 | 1533 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I16_PLUS | * | hetalt | 95.5588 | 91.7541 | 99.6928 | 55.4720 | 1925 | 173 | 1947 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.1818 | 100.0000 | 87.2340 | 88.0102 | 41 | 0 | 41 | 6 | 5 | 83.3333 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0557 | 88.2519 | 98.4127 | 61.7176 | 1878 | 250 | 1860 | 30 | 25 | 83.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 89.6938 | 81.4584 | 99.7817 | 61.4370 | 4837 | 1101 | 2742 | 6 | 5 | 83.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 87.0799 | 77.3066 | 99.6819 | 40.4484 | 4558 | 1338 | 1880 | 6 | 5 | 83.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 87.0799 | 77.3066 | 99.6819 | 40.4484 | 4558 | 1338 | 1880 | 6 | 5 | 83.3333 | |
| qzeng-custom | SNP | * | * | hetalt | 98.2537 | 97.2445 | 99.2840 | 55.4492 | 847 | 24 | 832 | 6 | 5 | 83.3333 | |
| qzeng-custom | SNP | * | map_l250_m2_e1 | * | 75.9076 | 64.2294 | 92.7764 | 95.4610 | 5130 | 2857 | 5086 | 396 | 330 | 83.3333 | |
| qzeng-custom | SNP | tv | * | hetalt | 98.2537 | 97.2445 | 99.2840 | 55.4492 | 847 | 24 | 832 | 6 | 5 | 83.3333 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0381 | 99.3603 | 98.7179 | 86.0756 | 466 | 3 | 462 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7788 | 100.0000 | 99.5585 | 73.7137 | 1353 | 0 | 1353 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 74.0374 | 59.1106 | 99.0498 | 29.9414 | 4785 | 3310 | 4378 | 42 | 35 | 83.3333 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5852 | 99.4085 | 99.7626 | 54.0647 | 25209 | 150 | 25209 | 60 | 50 | 83.3333 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 83.7927 | 80.8511 | 86.9565 | 77.0000 | 38 | 9 | 40 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.7368 | 93.2088 | 96.3158 | 71.7892 | 1098 | 80 | 1098 | 42 | 35 | 83.3333 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3269 | 96.0452 | 96.6102 | 70.0508 | 170 | 7 | 171 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | homalt | 99.5215 | 99.1930 | 99.8523 | 72.7346 | 4056 | 33 | 4056 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8164 | 99.7288 | 99.9041 | 43.6419 | 6251 | 17 | 6252 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 79.7416 | 66.9975 | 98.4728 | 66.8746 | 10329 | 5088 | 9672 | 150 | 125 | 83.3333 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 62.3929 | 45.5428 | 99.0338 | 45.1898 | 751 | 898 | 615 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 79.3774 | 73.9130 | 85.7143 | 59.6154 | 34 | 12 | 36 | 6 | 5 | 83.3333 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.5345 | 98.0092 | 99.0654 | 64.3729 | 640 | 13 | 636 | 6 | 5 | 83.3333 | |
| ltrigg-rtg2 | SNP | ti | HG002compoundhet | homalt | 99.4222 | 98.9316 | 99.9177 | 28.6749 | 7315 | 79 | 7282 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2878 | 94.3032 | 98.3577 | 77.3927 | 1076 | 65 | 1078 | 18 | 15 | 83.3333 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m1_e0 | het | 81.9153 | 76.2712 | 88.4615 | 80.2281 | 45 | 14 | 46 | 6 | 5 | 83.3333 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m2_e0 | het | 82.5467 | 77.0492 | 88.8889 | 82.1192 | 47 | 14 | 48 | 6 | 5 | 83.3333 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m2_e1 | het | 82.5467 | 77.0492 | 88.8889 | 82.5243 | 47 | 14 | 48 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.5635 | 98.2824 | 98.8462 | 65.4025 | 515 | 9 | 514 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | tv | map_siren | homalt | 99.8287 | 99.7274 | 99.9303 | 55.1755 | 17193 | 47 | 17193 | 12 | 10 | 83.3333 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m0_e0 | * | 84.7268 | 75.8065 | 96.0265 | 93.8384 | 376 | 120 | 435 | 18 | 15 | 83.3333 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e0 | * | 81.3204 | 72.2826 | 92.9412 | 97.5589 | 133 | 51 | 158 | 12 | 10 | 83.3333 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e1 | * | 81.4309 | 72.4324 | 92.9825 | 97.5939 | 134 | 51 | 159 | 12 | 10 | 83.3333 | |
| raldana-dualsentieon | SNP | ti | map_l125_m0_e0 | homalt | 99.6205 | 99.3765 | 99.8657 | 64.9902 | 4463 | 28 | 4463 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7785 | 99.6681 | 99.8891 | 70.9180 | 5405 | 18 | 5405 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.8992 | 89.1688 | 99.1597 | 88.4671 | 708 | 86 | 708 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7785 | 99.6681 | 99.8891 | 70.9180 | 5405 | 18 | 5405 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 90.6418 | 89.6396 | 91.6667 | 81.6483 | 199 | 23 | 198 | 18 | 15 | 83.3333 | |
| rpoplin-dv42 | INDEL | * | map_l150_m1_e0 | homalt | 98.7013 | 98.7013 | 98.7013 | 88.1081 | 456 | 6 | 456 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e0 | homalt | 98.7526 | 98.7526 | 98.7526 | 89.0183 | 475 | 6 | 475 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9243 | 99.8836 | 99.9650 | 55.5651 | 17157 | 20 | 17153 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9097 | 99.8737 | 99.9458 | 56.0006 | 11070 | 14 | 11066 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8762 | 99.8119 | 99.9405 | 50.3909 | 10083 | 19 | 10083 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | homalt | 99.1768 | 98.6739 | 99.6848 | 64.1086 | 3795 | 51 | 3795 | 12 | 10 | 83.3333 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3266 | 99.6622 | 98.9933 | 82.4396 | 590 | 2 | 590 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3475 | 99.6727 | 99.0244 | 83.2288 | 609 | 2 | 609 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3569 | 99.6774 | 99.0385 | 83.3511 | 618 | 2 | 618 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3717 | 99.3717 | 99.3717 | 79.9201 | 949 | 6 | 949 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.3260 | 97.7233 | 98.9362 | 63.8924 | 558 | 13 | 558 | 6 | 5 | 83.3333 | |