PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24701-24750 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9618 | 96.7154 | 99.2407 | 47.8941 | 10718 | 364 | 10718 | 82 | 78 | 95.1220 | |
| raldana-dualsentieon | INDEL | I16_PLUS | HG002complexvar | * | 97.8362 | 96.7150 | 98.9836 | 65.6644 | 1266 | 43 | 1266 | 13 | 12 | 92.3077 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m1_e0 | * | 97.7372 | 96.7140 | 98.7823 | 87.5119 | 1295 | 44 | 1298 | 16 | 4 | 25.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1998 | 96.7133 | 99.7327 | 79.6799 | 10446 | 355 | 10447 | 28 | 3 | 10.7143 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e1 | * | 97.1814 | 96.7122 | 97.6551 | 80.7455 | 31151 | 1059 | 31151 | 748 | 233 | 31.1497 | |
| jli-custom | SNP | ti | map_l250_m2_e0 | het | 97.8393 | 96.7117 | 98.9934 | 87.4744 | 3147 | 107 | 3147 | 32 | 16 | 50.0000 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e1 | het | 95.8577 | 96.7115 | 95.0189 | 76.5004 | 12587 | 428 | 12590 | 660 | 337 | 51.0606 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6744 | 96.7105 | 98.6577 | 91.3221 | 147 | 5 | 147 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m2_e0 | * | 97.7479 | 96.7105 | 98.8077 | 88.3990 | 1323 | 45 | 1326 | 16 | 4 | 25.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6744 | 96.7105 | 98.6577 | 91.3873 | 147 | 5 | 147 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.3309 | 96.7105 | 97.9592 | 91.2343 | 147 | 5 | 144 | 3 | 2 | 66.6667 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 98.0107 | 96.7105 | 99.3464 | 91.3803 | 147 | 5 | 152 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_l125_m1_e0 | * | 96.8890 | 96.7104 | 97.0682 | 71.9792 | 28370 | 965 | 28374 | 857 | 408 | 47.6079 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e0 | * | 97.0663 | 96.7102 | 97.4251 | 83.8811 | 1852 | 63 | 2308 | 61 | 36 | 59.0164 | |
| cchapple-custom | SNP | ti | map_l125_m2_e1 | homalt | 98.3230 | 96.7097 | 99.9910 | 63.9684 | 11081 | 377 | 11078 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6609 | 96.7085 | 98.6322 | 60.0245 | 63200 | 2151 | 78454 | 1088 | 926 | 85.1103 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6609 | 96.7085 | 98.6322 | 60.0245 | 63200 | 2151 | 78454 | 1088 | 926 | 85.1103 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | het | 97.9184 | 96.7078 | 99.1597 | 85.5451 | 470 | 16 | 472 | 4 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9137 | 96.7068 | 99.1511 | 64.1489 | 5139 | 175 | 5139 | 44 | 40 | 90.9091 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8387 | 96.7060 | 98.9983 | 70.9717 | 2378 | 81 | 2372 | 24 | 3 | 12.5000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.7434 | 96.7060 | 96.7809 | 72.0820 | 2378 | 81 | 2345 | 78 | 34 | 43.5897 | |
| cchapple-custom | SNP | tv | map_l150_m1_e0 | homalt | 98.3252 | 96.7055 | 100.0000 | 67.0155 | 3816 | 130 | 3814 | 0 | 0 | ||
| gduggal-snapfb | SNP | tv | map_l150_m2_e1 | * | 96.3446 | 96.7049 | 95.9869 | 79.3609 | 11123 | 379 | 11122 | 465 | 180 | 38.7097 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1193 | 96.7034 | 99.5773 | 66.6375 | 15547 | 530 | 15547 | 66 | 50 | 75.7576 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1193 | 96.7034 | 99.5773 | 66.6375 | 15547 | 530 | 15547 | 66 | 50 | 75.7576 | |
| gduggal-snapvard | SNP | tv | map_l100_m2_e1 | homalt | 98.2305 | 96.6996 | 99.8105 | 63.7425 | 8995 | 307 | 8956 | 17 | 11 | 64.7059 | |
| cchapple-custom | SNP | ti | map_l150_m2_e0 | * | 96.8497 | 96.6995 | 97.0004 | 78.4535 | 19835 | 677 | 19823 | 613 | 163 | 26.5905 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1679 | 96.6993 | 97.6410 | 51.8960 | 13330 | 455 | 13328 | 322 | 315 | 97.8261 | |
| hfeng-pmm1 | SNP | ti | HG002compoundhet | * | 98.2873 | 96.6987 | 99.9291 | 34.1329 | 16901 | 577 | 16902 | 12 | 8 | 66.6667 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | homalt | 96.6684 | 96.6984 | 96.6384 | 45.8931 | 13004 | 444 | 12649 | 440 | 434 | 98.6364 | |
| gduggal-snapfb | SNP | tv | map_l100_m0_e0 | * | 96.3071 | 96.6979 | 95.9195 | 73.9602 | 10718 | 366 | 10719 | 456 | 169 | 37.0614 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1325 | 96.6975 | 99.6107 | 39.2966 | 17656 | 603 | 17657 | 69 | 63 | 91.3043 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e0 | * | 97.1685 | 96.6972 | 97.6445 | 80.6949 | 30800 | 1052 | 30800 | 743 | 232 | 31.2248 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5508 | 96.6967 | 98.4202 | 87.9726 | 644 | 22 | 623 | 10 | 5 | 50.0000 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | * | 95.4074 | 96.6967 | 94.1520 | 96.3590 | 322 | 11 | 322 | 20 | 4 | 20.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5508 | 96.6967 | 98.4202 | 87.9726 | 644 | 22 | 623 | 10 | 5 | 50.0000 | |
| qzeng-custom | INDEL | D6_15 | * | homalt | 94.3599 | 96.6962 | 92.1338 | 47.6739 | 6117 | 209 | 6114 | 522 | 246 | 47.1264 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.7062 | 96.6942 | 98.7395 | 67.2176 | 234 | 8 | 235 | 3 | 2 | 66.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l250_m2_e0 | het | 95.9016 | 96.6942 | 95.1220 | 94.7771 | 117 | 4 | 117 | 6 | 1 | 16.6667 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m1_e0 | het | 97.8418 | 96.6942 | 99.0169 | 76.5404 | 702 | 24 | 705 | 7 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l250_m2_e0 | het | 96.6942 | 96.6942 | 96.6942 | 95.4167 | 117 | 4 | 117 | 4 | 2 | 50.0000 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m2_e0 | het | 84.7826 | 96.6942 | 75.4839 | 96.9295 | 117 | 4 | 117 | 38 | 3 | 7.8947 | |
| gduggal-bwafb | INDEL | D1_5 | map_l250_m2_e0 | het | 97.0954 | 96.6942 | 97.5000 | 95.0556 | 117 | 4 | 117 | 3 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l250_m2_e0 | het | 93.6000 | 96.6942 | 90.6977 | 93.6233 | 117 | 4 | 117 | 12 | 1 | 8.3333 | |
| gduggal-snapvard | SNP | tv | map_l150_m0_e0 | het | 83.5823 | 96.6936 | 73.6022 | 87.1311 | 2749 | 94 | 2738 | 982 | 41 | 4.1752 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1075 | 96.6926 | 99.5645 | 63.4833 | 13302 | 455 | 13260 | 58 | 44 | 75.8621 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1075 | 96.6926 | 99.5645 | 63.4833 | 13302 | 455 | 13260 | 58 | 44 | 75.8621 | |
| raldana-dualsentieon | INDEL | * | map_l150_m0_e0 | * | 96.6054 | 96.6926 | 96.5184 | 90.3545 | 497 | 17 | 499 | 18 | 2 | 11.1111 | |