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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29151-29200 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.8901 | 95.6863 | 98.1246 | 84.9192 | 1464 | 66 | 1465 | 28 | 18 | 64.2857 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1875 | 96.2685 | 98.1242 | 59.9927 | 30236 | 1172 | 30236 | 578 | 510 | 88.2353 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1875 | 96.2685 | 98.1242 | 59.9927 | 30236 | 1172 | 30236 | 578 | 510 | 88.2353 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e0 | het | 97.6728 | 97.2258 | 98.1239 | 84.2550 | 2243 | 64 | 2249 | 43 | 19 | 44.1860 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6694 | 99.2221 | 98.1229 | 87.5306 | 1148 | 9 | 1150 | 22 | 5 | 22.7273 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8684 | 99.6256 | 98.1226 | 58.6142 | 11441 | 43 | 11446 | 219 | 209 | 95.4338 | |
| jmaeng-gatk | SNP | ti | map_l100_m0_e0 | * | 83.3904 | 72.5047 | 98.1224 | 83.1489 | 15785 | 5986 | 15782 | 302 | 37 | 12.2517 | |
| rpoplin-dv42 | SNP | tv | map_l125_m0_e0 | het | 98.3333 | 98.5458 | 98.1217 | 74.3380 | 4337 | 64 | 4336 | 83 | 43 | 51.8072 | |
| ckim-isaac | INDEL | * | map_siren | * | 85.3582 | 75.5331 | 98.1215 | 78.4772 | 5597 | 1813 | 5589 | 107 | 46 | 42.9907 | |
| qzeng-custom | SNP | tv | HG002compoundhet | * | 98.0856 | 98.0500 | 98.1212 | 53.9878 | 8749 | 174 | 9244 | 177 | 64 | 36.1582 | |
| ckim-vqsr | SNP | * | map_l250_m2_e0 | * | 59.1976 | 42.3843 | 98.1210 | 97.1166 | 3342 | 4543 | 3342 | 64 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.4731 | 87.4402 | 98.1208 | 65.4453 | 731 | 105 | 731 | 14 | 12 | 85.7143 | |
| ckim-gatk | INDEL | I16_PLUS | * | * | 97.3609 | 96.6128 | 98.1207 | 70.7109 | 6161 | 216 | 6161 | 118 | 83 | 70.3390 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9650 | 99.8245 | 98.1202 | 75.4285 | 30707 | 54 | 30692 | 588 | 582 | 98.9796 | |
| qzeng-custom | SNP | tv | map_l100_m2_e1 | * | 88.3100 | 80.2832 | 98.1201 | 78.5916 | 20298 | 4985 | 20251 | 388 | 306 | 78.8660 | |
| anovak-vg | SNP | * | HG002complexvar | het | 97.3572 | 96.6062 | 98.1199 | 19.3647 | 449702 | 15798 | 439022 | 8412 | 6308 | 74.9881 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.9606 | 99.8160 | 98.1198 | 64.2712 | 2170 | 4 | 2244 | 43 | 1 | 2.3256 | |
| qzeng-custom | SNP | * | HG002compoundhet | het | 97.8777 | 97.6372 | 98.1193 | 49.7459 | 13843 | 335 | 16591 | 318 | 73 | 22.9560 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m0_e0 | homalt | 94.0528 | 90.3101 | 98.1191 | 79.0407 | 233 | 25 | 313 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | * | map_l150_m1_e0 | * | 97.6748 | 97.2347 | 98.1189 | 98.7054 | 1301 | 37 | 1304 | 25 | 9 | 36.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.0946 | 96.0916 | 98.1187 | 71.9562 | 713 | 29 | 678 | 13 | 8 | 61.5385 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6551 | 99.1981 | 98.1180 | 73.7453 | 19422 | 157 | 19551 | 375 | 40 | 10.6667 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6551 | 99.1981 | 98.1180 | 73.7453 | 19422 | 157 | 19551 | 375 | 40 | 10.6667 | |
| egarrison-hhga | INDEL | * | segdup | * | 97.9435 | 97.7700 | 98.1176 | 98.6833 | 2499 | 57 | 2502 | 48 | 36 | 75.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.5368 | 96.9631 | 98.1174 | 69.9601 | 894 | 28 | 886 | 17 | 14 | 82.3529 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | homalt | 98.2891 | 98.4634 | 98.1154 | 70.9396 | 1666 | 26 | 1666 | 32 | 25 | 78.1250 | |
| qzeng-custom | SNP | tv | segdup | * | 98.3829 | 98.6521 | 98.1152 | 93.4371 | 8417 | 115 | 8381 | 161 | 27 | 16.7702 | |
| eyeh-varpipe | SNP | ti | map_l150_m0_e0 | * | 98.7920 | 99.4784 | 98.1149 | 82.5537 | 7820 | 41 | 7703 | 148 | 7 | 4.7297 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1656 | 75.2364 | 98.1141 | 84.6685 | 22999 | 7570 | 22995 | 442 | 41 | 9.2760 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.1153 | 94.1966 | 98.1139 | 51.3592 | 2808 | 173 | 2809 | 54 | 50 | 92.5926 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m1_e0 | het | 92.8571 | 88.1356 | 98.1132 | 86.2338 | 52 | 7 | 52 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6256 | 97.1429 | 98.1132 | 78.4302 | 374 | 11 | 364 | 7 | 6 | 85.7143 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3988 | 87.3134 | 98.1132 | 62.3817 | 468 | 68 | 468 | 9 | 7 | 77.7778 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m2_e1 | * | 96.2963 | 94.5455 | 98.1132 | 86.2694 | 260 | 15 | 260 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0476 | 100.0000 | 98.1132 | 79.0099 | 208 | 0 | 208 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l150_m2_e1 | het | 97.9522 | 97.7918 | 98.1132 | 91.3774 | 310 | 7 | 312 | 6 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0476 | 100.0000 | 98.1132 | 79.0514 | 208 | 0 | 208 | 4 | 3 | 75.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.5816 | 87.6404 | 98.1132 | 68.5149 | 156 | 22 | 156 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | I6_15 | map_l100_m1_e0 | het | 92.8571 | 88.1356 | 98.1132 | 84.9432 | 52 | 7 | 52 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0476 | 100.0000 | 98.1132 | 80.5147 | 208 | 0 | 208 | 4 | 3 | 75.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | * | hetalt | 0.0000 | 0.0000 | 98.1132 | 93.2138 | 0 | 0 | 156 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | INDEL | C6_15 | HG002complexvar | homalt | 0.0000 | 0.0000 | 98.1132 | 91.5335 | 0 | 0 | 52 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 98.1132 | 96.0015 | 0 | 0 | 104 | 2 | 1 | 50.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 98.1132 | 95.6414 | 0 | 0 | 52 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | homalt | 0.0000 | 0.0000 | 98.1132 | 91.7574 | 0 | 0 | 52 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l250_m1_e0 | het | 91.0871 | 85.0000 | 98.1132 | 91.4239 | 51 | 9 | 52 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_l100_m1_e0 | het | 94.7049 | 91.5254 | 98.1132 | 74.6411 | 54 | 5 | 52 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 96.3083 | 94.5687 | 98.1132 | 46.8227 | 296 | 17 | 156 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0476 | 100.0000 | 98.1132 | 81.8648 | 208 | 0 | 208 | 4 | 2 | 50.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l250_m1_e0 | het | 92.0354 | 86.6667 | 98.1132 | 96.1398 | 52 | 8 | 52 | 1 | 0 | 0.0000 | |