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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71501-71550 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9343 | 99.9507 | 99.9179 | 54.3410 | 6085 | 3 | 6085 | 5 | 5 | 100.0000 | |
| jlack-gatk | SNP | * | map_siren | homalt | 99.6008 | 99.2857 | 99.9179 | 50.5286 | 54762 | 394 | 54753 | 45 | 30 | 66.6667 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6524 | 99.3882 | 99.9179 | 31.7465 | 7310 | 45 | 7306 | 6 | 1 | 16.6667 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.0944 | 98.2843 | 99.9179 | 60.1440 | 1203 | 21 | 1217 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e0 | homalt | 99.7949 | 99.6723 | 99.9179 | 61.7916 | 18249 | 60 | 18249 | 15 | 15 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3977 | 98.8829 | 99.9179 | 55.5579 | 14605 | 165 | 14609 | 12 | 3 | 25.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.7135 | 99.5098 | 99.9180 | 66.6027 | 1218 | 6 | 1218 | 1 | 0 | 0.0000 | |
| ckim-gatk | SNP | ti | HG002compoundhet | homalt | 99.4702 | 99.0262 | 99.9181 | 30.6914 | 7322 | 72 | 7322 | 6 | 6 | 100.0000 | |
| mlin-fermikit | SNP | ti | * | het | 98.8419 | 97.7886 | 99.9182 | 14.5462 | 1253549 | 28348 | 1253519 | 1026 | 32 | 3.1189 | |
| raldana-dualsentieon | SNP | ti | map_l125_m1_e0 | homalt | 99.7597 | 99.6016 | 99.9183 | 62.2389 | 11001 | 44 | 11001 | 9 | 8 | 88.8889 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7872 | 99.6565 | 99.9183 | 57.2121 | 17118 | 59 | 17114 | 14 | 8 | 57.1429 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6735 | 97.4593 | 99.9183 | 53.0977 | 11009 | 287 | 11006 | 9 | 4 | 44.4444 | |
| hfeng-pmm1 | SNP | * | map_siren | homalt | 99.8994 | 99.8803 | 99.9184 | 53.4037 | 55090 | 66 | 55084 | 45 | 26 | 57.7778 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8311 | 99.7438 | 99.9184 | 52.5299 | 17133 | 44 | 17145 | 14 | 9 | 64.2857 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7605 | 99.6030 | 99.9185 | 55.4188 | 11040 | 44 | 11040 | 9 | 6 | 66.6667 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5537 | 99.1915 | 99.9186 | 53.5276 | 6134 | 50 | 6134 | 5 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8239 | 99.7293 | 99.9186 | 58.6595 | 11054 | 30 | 11050 | 9 | 2 | 22.2222 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5138 | 99.1122 | 99.9186 | 36.8380 | 2456 | 22 | 2455 | 2 | 1 | 50.0000 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e1 | homalt | 99.7970 | 99.6756 | 99.9187 | 61.7788 | 18434 | 60 | 18434 | 15 | 15 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6839 | 99.4502 | 99.9188 | 54.8820 | 6150 | 34 | 6150 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9052 | 99.8917 | 99.9188 | 56.2157 | 11072 | 12 | 11068 | 9 | 4 | 44.4444 | |
| jlack-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8648 | 99.9188 | 30.3225 | 7384 | 10 | 7384 | 6 | 6 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | HG002compoundhet | homalt | 99.9324 | 99.9459 | 99.9189 | 30.7750 | 7390 | 4 | 7390 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | HG002compoundhet | homalt | 99.9392 | 99.9594 | 99.9189 | 30.5967 | 7391 | 3 | 7391 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7169 | 99.5157 | 99.9189 | 27.4838 | 2466 | 12 | 2465 | 2 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6764 | 99.4350 | 99.9189 | 28.6252 | 2464 | 14 | 2464 | 2 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | ti | HG002compoundhet | homalt | 99.9189 | 99.9189 | 99.9189 | 30.4421 | 7388 | 6 | 7388 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m1_e0 | * | 96.5840 | 93.4643 | 99.9191 | 77.8524 | 2474 | 173 | 2471 | 2 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e0 | homalt | 99.7405 | 99.5626 | 99.9191 | 67.9668 | 17299 | 76 | 17299 | 14 | 13 | 92.8571 | |
| jli-custom | SNP | * | map_l125_m2_e0 | homalt | 99.7463 | 99.5741 | 99.9191 | 65.3928 | 17301 | 74 | 17301 | 14 | 13 | 92.8571 | |
| rpoplin-dv42 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8991 | 99.8789 | 99.9192 | 29.1154 | 2475 | 3 | 2474 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1579 | 98.4076 | 99.9197 | 59.2367 | 34855 | 564 | 34845 | 28 | 5 | 17.8571 | |
| ckim-isaac | SNP | ti | map_l150_m2_e0 | homalt | 65.7563 | 49.0021 | 99.9197 | 70.0457 | 3732 | 3884 | 3732 | 3 | 3 | 100.0000 | |
| gduggal-snapplat | SNP | tv | map_siren | homalt | 96.8214 | 93.9095 | 99.9197 | 58.2133 | 16190 | 1050 | 16181 | 13 | 5 | 38.4615 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 93.1937 | 87.3160 | 99.9198 | 34.2646 | 1246 | 181 | 1246 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | * | map_siren | homalt | 99.7102 | 99.5014 | 99.9199 | 54.2074 | 54881 | 275 | 54881 | 44 | 25 | 56.8182 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e1 | homalt | 99.7429 | 99.5665 | 99.9199 | 68.0072 | 17456 | 76 | 17456 | 14 | 13 | 92.8571 | |
| jli-custom | SNP | * | map_l125_m2_e1 | homalt | 99.7486 | 99.5779 | 99.9199 | 65.4177 | 17458 | 74 | 17458 | 14 | 13 | 92.8571 | |
| ltrigg-rtg2 | INDEL | I1_5 | * | homalt | 99.7495 | 99.5797 | 99.9200 | 48.8836 | 60173 | 254 | 59955 | 48 | 38 | 79.1667 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7923 | 99.6650 | 99.9200 | 46.9810 | 6247 | 21 | 6247 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8403 | 99.7607 | 99.9201 | 44.1798 | 6253 | 15 | 6253 | 5 | 2 | 40.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8403 | 99.7607 | 99.9201 | 44.0150 | 6253 | 15 | 6253 | 5 | 3 | 60.0000 | |
| ndellapenna-hhga | SNP | ti | func_cds | * | 99.9384 | 99.9565 | 99.9202 | 22.0527 | 13781 | 6 | 13781 | 11 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9202 | 99.9202 | 99.9202 | 44.4375 | 6263 | 5 | 6263 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | homalt | 63.6387 | 46.6865 | 99.9203 | 93.0743 | 1254 | 1432 | 1254 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9159 | 99.9115 | 99.9203 | 55.8220 | 11286 | 10 | 11286 | 9 | 9 | 100.0000 | |
| jlack-gatk | SNP | ti | map_siren | homalt | 99.6031 | 99.2879 | 99.9204 | 49.0602 | 37646 | 270 | 37640 | 30 | 20 | 66.6667 | |
| cchapple-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8364 | 99.7525 | 99.9204 | 39.9139 | 10077 | 25 | 10036 | 8 | 6 | 75.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7967 | 99.6732 | 99.9204 | 57.8106 | 10064 | 33 | 10047 | 8 | 2 | 25.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0140 | 98.1239 | 99.9205 | 31.1473 | 5021 | 96 | 5025 | 4 | 4 | 100.0000 | |