PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9901-9950 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.4605 | 98.5514 | 94.4565 | 64.0006 | 2177 | 32 | 2181 | 128 | 121 | 94.5312 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.0253 | 80.8399 | 83.2461 | 66.0293 | 616 | 146 | 636 | 128 | 70 | 54.6875 | |
| ckim-isaac | INDEL | D1_5 | HG002complexvar | hetalt | 83.2980 | 76.1834 | 91.8782 | 58.9369 | 1030 | 322 | 1448 | 128 | 116 | 90.6250 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | * | 69.7523 | 53.9693 | 98.5819 | 89.6043 | 8899 | 7590 | 8898 | 128 | 1 | 0.7813 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e1 | * | 69.8938 | 54.1334 | 98.6002 | 89.6003 | 9017 | 7640 | 9016 | 128 | 1 | 0.7813 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.0520 | 90.0033 | 98.4822 | 69.9861 | 8220 | 913 | 8305 | 128 | 13 | 10.1562 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 82.8671 | 76.7932 | 89.9844 | 83.5648 | 1092 | 330 | 1150 | 128 | 68 | 53.1250 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.0520 | 90.0033 | 98.4822 | 69.9861 | 8220 | 913 | 8305 | 128 | 13 | 10.1562 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.2012 | 82.9480 | 91.9141 | 36.2721 | 1435 | 295 | 1455 | 128 | 122 | 95.3125 | |
| ckim-vqsr | INDEL | D6_15 | HG002compoundhet | homalt | 27.2727 | 100.0000 | 15.7895 | 71.2121 | 24 | 0 | 24 | 128 | 127 | 99.2188 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.9200 | 99.9179 | 97.9418 | 56.8515 | 6083 | 5 | 6091 | 128 | 59 | 46.0938 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 51.1480 | 34.9051 | 95.6654 | 53.7872 | 2813 | 5246 | 2825 | 128 | 108 | 84.3750 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 51.1480 | 34.9051 | 95.6654 | 53.7872 | 2813 | 5246 | 2825 | 128 | 108 | 84.3750 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 31.9191 | 20.6647 | 70.0935 | 57.9568 | 342 | 1313 | 300 | 128 | 30 | 23.4375 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e1 | het | 80.9197 | 78.6420 | 83.3333 | 93.5255 | 637 | 173 | 640 | 128 | 3 | 2.3438 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 17.9487 | 94.2563 | 0 | 0 | 28 | 128 | 43 | 33.5938 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 41.1414 | 67.0732 | 29.6703 | 62.4742 | 55 | 27 | 54 | 128 | 119 | 92.9688 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e1 | het | 63.3474 | 64.9842 | 61.7910 | 92.1527 | 206 | 111 | 207 | 128 | 110 | 85.9375 | |
| cchapple-custom | SNP | * | HG002compoundhet | * | 99.2099 | 98.9002 | 99.5216 | 40.1325 | 25538 | 284 | 26628 | 128 | 97 | 75.7812 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5950 | 99.6678 | 97.5451 | 34.2663 | 5100 | 17 | 5086 | 128 | 121 | 94.5312 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.5522 | 92.4908 | 79.5820 | 75.9660 | 505 | 41 | 495 | 127 | 74 | 58.2677 | |
| ciseli-custom | SNP | tv | segdup | homalt | 97.7133 | 99.2897 | 96.1862 | 90.1152 | 3215 | 23 | 3203 | 127 | 72 | 56.6929 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | * | 97.0145 | 97.3908 | 96.6411 | 87.1665 | 3658 | 98 | 3654 | 127 | 20 | 15.7480 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9552 | 95.8879 | 96.0225 | 64.6127 | 3078 | 132 | 3066 | 127 | 123 | 96.8504 | |
| ckim-gatk | SNP | * | map_l250_m2_e0 | * | 70.6281 | 55.4724 | 97.1784 | 96.2246 | 4374 | 3511 | 4374 | 127 | 10 | 7.8740 | |
| ckim-gatk | SNP | * | map_l250_m2_e0 | het | 73.8651 | 59.9923 | 96.0839 | 96.7509 | 3116 | 2078 | 3116 | 127 | 10 | 7.8740 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.9887 | 87.7705 | 88.2080 | 78.0159 | 933 | 130 | 950 | 127 | 70 | 55.1181 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 31.5326 | 23.3410 | 48.5830 | 48.6486 | 102 | 335 | 120 | 127 | 95 | 74.8031 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | * | 97.0316 | 96.1110 | 97.9699 | 70.7650 | 6129 | 248 | 6129 | 127 | 100 | 78.7402 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.8667 | 97.9695 | 90.0936 | 51.1619 | 1158 | 24 | 1155 | 127 | 117 | 92.1260 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.5378 | 41.1765 | 46.1864 | 59.0278 | 21 | 30 | 109 | 127 | 107 | 84.2520 | |
| jli-custom | SNP | ti | segdup | * | 99.6094 | 99.8669 | 99.3533 | 88.6519 | 19511 | 26 | 19511 | 127 | 6 | 4.7244 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e1 | het | 73.9537 | 60.0874 | 96.1398 | 96.8694 | 3163 | 2101 | 3163 | 127 | 9 | 7.0866 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4365 | 96.8847 | 97.9946 | 71.7201 | 6220 | 200 | 6206 | 127 | 19 | 14.9606 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4365 | 96.8847 | 97.9946 | 71.7201 | 6220 | 200 | 6206 | 127 | 19 | 14.9606 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 48.5484 | 60.8696 | 40.3756 | 32.1656 | 14 | 9 | 86 | 127 | 125 | 98.4252 | |
| gduggal-bwavard | INDEL | * | map_l150_m0_e0 | het | 83.4371 | 98.2405 | 72.5108 | 94.3348 | 335 | 6 | 335 | 127 | 22 | 17.3228 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.5209 | 83.4104 | 92.0575 | 35.5502 | 1443 | 287 | 1472 | 127 | 115 | 90.5512 | |
| jlack-gatk | INDEL | I16_PLUS | HG002compoundhet | homalt | 4.5113 | 100.0000 | 2.3077 | 65.0538 | 3 | 0 | 3 | 127 | 123 | 96.8504 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | * | 99.2955 | 99.2468 | 99.3441 | 74.5016 | 19239 | 146 | 19236 | 127 | 18 | 14.1732 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | het | 99.2946 | 99.2143 | 99.3751 | 76.6790 | 20203 | 160 | 20197 | 127 | 13 | 10.2362 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002compoundhet | homalt | 83.5249 | 99.3921 | 72.0264 | 83.4186 | 327 | 2 | 327 | 127 | 126 | 99.2126 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0802 | 98.5775 | 99.5880 | 67.8801 | 30700 | 443 | 30701 | 127 | 3 | 2.3622 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0802 | 98.5775 | 99.5880 | 67.8801 | 30700 | 443 | 30701 | 127 | 3 | 2.3622 | |
| hfeng-pmm2 | SNP | tv | map_l125_m1_e0 | het | 98.9851 | 99.2198 | 98.7515 | 74.5484 | 10047 | 79 | 10045 | 127 | 11 | 8.6614 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e0 | het | 99.0157 | 99.2434 | 98.7891 | 75.7772 | 10363 | 79 | 10361 | 127 | 11 | 8.6614 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | het | 99.0261 | 99.2514 | 98.8018 | 75.8168 | 10474 | 79 | 10472 | 127 | 11 | 8.6614 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4957 | 86.7773 | 99.0210 | 60.7081 | 12817 | 1953 | 12846 | 127 | 18 | 14.1732 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.5191 | 81.9668 | 96.2101 | 86.7350 | 3209 | 706 | 3224 | 127 | 53 | 41.7323 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.4760 | 30.0699 | 25.2941 | 98.0122 | 43 | 100 | 43 | 127 | 9 | 7.0866 | |