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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50701-50750 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.2011 | 96.5962 | 95.8091 | 80.4640 | 823 | 29 | 823 | 36 | 31 | 86.1111 | |
| jmaeng-gatk | INDEL | * | map_l100_m1_e0 | * | 96.9028 | 98.0201 | 95.8107 | 88.4970 | 3515 | 71 | 3522 | 154 | 21 | 13.6364 | |
| cchapple-custom | SNP | tv | map_l125_m1_e0 | * | 96.5512 | 97.3027 | 95.8113 | 74.0329 | 15584 | 432 | 15577 | 681 | 116 | 17.0338 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.2164 | 98.6631 | 95.8115 | 54.1966 | 369 | 5 | 366 | 16 | 6 | 37.5000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.6582 | 93.5323 | 95.8115 | 68.9767 | 564 | 39 | 549 | 24 | 14 | 58.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l250_m2_e0 | * | 97.6000 | 99.4565 | 95.8115 | 95.6223 | 183 | 1 | 183 | 8 | 1 | 12.5000 | |
| ckim-vqsr | INDEL | I16_PLUS | * | homalt | 97.7080 | 99.6797 | 95.8128 | 71.8495 | 1556 | 5 | 1556 | 68 | 67 | 98.5294 | |
| ckim-gatk | INDEL | I16_PLUS | * | homalt | 97.7080 | 99.6797 | 95.8128 | 71.8495 | 1556 | 5 | 1556 | 68 | 67 | 98.5294 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.9717 | 94.1441 | 95.8140 | 64.6962 | 209 | 13 | 206 | 9 | 6 | 66.6667 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.7460 | 99.7576 | 95.8140 | 68.5212 | 823 | 2 | 824 | 36 | 35 | 97.2222 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.7460 | 99.7576 | 95.8140 | 68.5212 | 823 | 2 | 824 | 36 | 35 | 97.2222 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.5412 | 99.3311 | 95.8146 | 61.4853 | 3861 | 26 | 3846 | 168 | 74 | 44.0476 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.2686 | 98.7673 | 95.8146 | 68.2034 | 641 | 8 | 641 | 28 | 28 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l150_m1_e0 | het | 97.2077 | 98.6419 | 95.8147 | 81.4139 | 12202 | 168 | 12202 | 533 | 123 | 23.0769 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9390 | 64.2764 | 95.8149 | 73.3607 | 5405 | 3004 | 5403 | 236 | 65 | 27.5424 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e1 | het | 78.2603 | 66.1417 | 95.8159 | 93.1509 | 336 | 172 | 458 | 20 | 9 | 45.0000 | |
| jlack-gatk | SNP | ti | map_siren | het | 97.5925 | 99.4357 | 95.8164 | 66.8895 | 62030 | 352 | 62021 | 2708 | 216 | 7.9764 | |
| eyeh-varpipe | SNP | * | map_l250_m0_e0 | het | 97.4164 | 99.0704 | 95.8167 | 94.5377 | 1492 | 14 | 1443 | 63 | 2 | 3.1746 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.9374 | 98.0844 | 95.8169 | 84.1185 | 28162 | 550 | 28220 | 1232 | 90 | 7.3052 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.9374 | 98.0844 | 95.8169 | 84.1185 | 28162 | 550 | 28220 | 1232 | 90 | 7.3052 | |
| cchapple-custom | SNP | * | map_l100_m1_e0 | het | 96.8285 | 97.8593 | 95.8192 | 72.2809 | 44388 | 971 | 44440 | 1939 | 401 | 20.6808 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.7156 | 93.6364 | 95.8199 | 71.7786 | 309 | 21 | 298 | 13 | 9 | 69.2308 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.0246 | 94.2424 | 95.8199 | 71.5462 | 311 | 19 | 298 | 13 | 9 | 69.2308 | |
| asubramanian-gatk | INDEL | I16_PLUS | * | homalt | 97.0923 | 98.3985 | 95.8203 | 73.2208 | 1536 | 25 | 1536 | 67 | 60 | 89.5522 | |
| ckim-gatk | INDEL | D1_5 | map_siren | het | 97.6349 | 99.5169 | 95.8228 | 85.4351 | 2266 | 11 | 2271 | 99 | 5 | 5.0505 | |
| ckim-dragen | SNP | ti | map_l150_m0_e0 | het | 96.9562 | 98.1165 | 95.8230 | 83.8541 | 5001 | 96 | 5001 | 218 | 18 | 8.2569 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | * | 92.4901 | 89.3812 | 95.8231 | 64.9842 | 1170 | 139 | 1170 | 51 | 30 | 58.8235 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.4461 | 99.1228 | 95.8251 | 69.1792 | 4407 | 39 | 4361 | 190 | 182 | 95.7895 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.3815 | 89.1767 | 95.8253 | 57.6036 | 3477 | 422 | 3489 | 152 | 75 | 49.3421 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0035 | 98.2095 | 95.8267 | 71.5438 | 2962 | 54 | 3008 | 131 | 4 | 3.0534 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-snapfb | SNP | tv | map_l100_m2_e1 | het | 97.1282 | 98.4628 | 95.8293 | 70.7561 | 15693 | 245 | 15693 | 683 | 223 | 32.6501 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.6339 | 99.5071 | 95.8298 | 51.0822 | 5653 | 28 | 5653 | 246 | 245 | 99.5935 | |
| ckim-vqsr | INDEL | D16_PLUS | HG002compoundhet | * | 95.5217 | 95.2157 | 95.8298 | 35.3889 | 2229 | 112 | 2229 | 97 | 95 | 97.9381 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 56.3564 | 39.9149 | 95.8304 | 60.8880 | 2719 | 4093 | 2735 | 119 | 102 | 85.7143 | |
| gduggal-bwafb | INDEL | I6_15 | HG002compoundhet | hetalt | 82.7582 | 72.8242 | 95.8306 | 40.7336 | 6217 | 2320 | 1471 | 64 | 63 | 98.4375 | |
| ckim-gatk | INDEL | * | map_l100_m2_e1 | * | 97.0874 | 98.3759 | 95.8323 | 89.0990 | 3695 | 61 | 3702 | 161 | 20 | 12.4224 | |
| ckim-dragen | INDEL | D6_15 | map_l125_m2_e0 | het | 96.5035 | 97.1831 | 95.8333 | 92.7565 | 69 | 2 | 69 | 3 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l125_m2_e1 | het | 96.5035 | 97.1831 | 95.8333 | 92.9550 | 69 | 2 | 69 | 3 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l150_m2_e0 | het | 97.8723 | 100.0000 | 95.8333 | 93.8303 | 46 | 0 | 46 | 2 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | het | 95.7890 | 95.7447 | 95.8333 | 94.6309 | 45 | 2 | 23 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 90.1961 | 85.1852 | 95.8333 | 97.7941 | 23 | 4 | 23 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.8723 | 100.0000 | 95.8333 | 85.3659 | 23 | 0 | 23 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l250_m2_e1 | homalt | 97.8723 | 100.0000 | 95.8333 | 95.1759 | 46 | 0 | 46 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.1784 | 90.6667 | 95.8333 | 42.4000 | 68 | 7 | 69 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.0000 | 88.4615 | 95.8333 | 90.9774 | 23 | 3 | 23 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.8723 | 100.0000 | 95.8333 | 90.5512 | 3 | 0 | 23 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | map_l125_m1_e0 | * | 92.1176 | 88.6792 | 95.8333 | 91.2727 | 47 | 6 | 46 | 2 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I6_15 | map_l125_m2_e0 | * | 92.1176 | 88.6792 | 95.8333 | 92.3323 | 47 | 6 | 46 | 2 | 0 | 0.0000 | |