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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17251-17300 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3976 | 98.8024 | 100.0000 | 50.1134 | 1320 | 16 | 1320 | 0 | 0 | ||
| ckim-dragen | SNP | * | map_l100_m0_e0 | het | 97.6312 | 98.8022 | 96.4876 | 75.1408 | 20951 | 254 | 20960 | 763 | 67 | 8.7811 | |
| ckim-gatk | INDEL | I1_5 | map_siren | * | 98.4771 | 98.8020 | 98.1543 | 83.2514 | 2969 | 36 | 2978 | 56 | 9 | 16.0714 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3317 | 98.8017 | 99.8674 | 38.4766 | 11296 | 137 | 11293 | 15 | 3 | 20.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1711 | 98.8017 | 99.5433 | 59.8357 | 19624 | 238 | 19617 | 90 | 58 | 64.4444 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.3971 | 98.8014 | 100.0000 | 18.3616 | 577 | 7 | 578 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.3971 | 98.8014 | 100.0000 | 18.5915 | 577 | 7 | 578 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.3971 | 98.8014 | 100.0000 | 18.5915 | 577 | 7 | 578 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | map_siren | het | 98.2591 | 98.8009 | 97.7232 | 58.6413 | 61634 | 748 | 61636 | 1436 | 494 | 34.4011 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2719 | 98.8007 | 99.7476 | 56.4979 | 16971 | 206 | 16992 | 43 | 6 | 13.9535 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e0 | homalt | 99.3103 | 98.7993 | 99.8267 | 86.8804 | 1728 | 21 | 1728 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 98.8260 | 98.7990 | 98.8530 | 85.3498 | 1892 | 23 | 1896 | 22 | 5 | 22.7273 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6805 | 98.7990 | 98.5623 | 71.8841 | 1234 | 15 | 1234 | 18 | 12 | 66.6667 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6805 | 98.7990 | 98.5623 | 71.8841 | 1234 | 15 | 1234 | 18 | 12 | 66.6667 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0369 | 98.7990 | 99.2759 | 70.2133 | 1234 | 15 | 1234 | 9 | 4 | 44.4444 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0369 | 98.7990 | 99.2759 | 70.2133 | 1234 | 15 | 1234 | 9 | 4 | 44.4444 | |
| rpoplin-dv42 | SNP | * | map_l150_m1_e0 | het | 98.8884 | 98.7989 | 98.9780 | 74.2870 | 19084 | 232 | 19078 | 197 | 116 | 58.8832 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2575 | 98.7987 | 99.7206 | 70.8721 | 63657 | 774 | 63532 | 178 | 101 | 56.7416 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0561 | 98.7981 | 99.3154 | 40.3094 | 4028 | 49 | 4062 | 28 | 17 | 60.7143 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.3066 | 98.7971 | 97.8209 | 68.6304 | 2464 | 30 | 2469 | 55 | 1 | 1.8182 | |
| dgrover-gatk | INDEL | I16_PLUS | HG002complexvar | het | 99.3949 | 98.7970 | 100.0000 | 64.8333 | 657 | 8 | 633 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | HG002complexvar | het | 99.3949 | 98.7970 | 100.0000 | 64.2575 | 657 | 8 | 633 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0782 | 98.7966 | 99.3614 | 79.3181 | 4187 | 51 | 4201 | 27 | 8 | 29.6296 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4310 | 98.7964 | 96.1027 | 79.7737 | 10671 | 130 | 10702 | 434 | 19 | 4.3779 | |
| qzeng-custom | SNP | ti | HG002compoundhet | homalt | 98.8966 | 98.7963 | 98.9971 | 38.0829 | 7305 | 89 | 5429 | 55 | 41 | 74.5455 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2639 | 98.7961 | 99.7361 | 66.9655 | 2626 | 32 | 2646 | 7 | 4 | 57.1429 | |
| cchapple-custom | INDEL | I1_5 | HG002complexvar | het | 99.2036 | 98.7960 | 99.6147 | 56.4110 | 17970 | 219 | 19130 | 74 | 62 | 83.7838 | |
| hfeng-pmm2 | SNP | tv | map_l125_m0_e0 | het | 98.4153 | 98.7957 | 98.0379 | 79.2988 | 4348 | 53 | 4347 | 87 | 9 | 10.3448 | |
| gduggal-bwavard | SNP | tv | func_cds | het | 99.0001 | 98.7956 | 99.2054 | 42.2421 | 2625 | 32 | 2622 | 21 | 9 | 42.8571 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.3678 | 98.7956 | 95.9807 | 75.1838 | 9023 | 110 | 9170 | 384 | 8 | 2.0833 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.3678 | 98.7956 | 95.9807 | 75.1838 | 9023 | 110 | 9170 | 384 | 8 | 2.0833 | |
| hfeng-pmm2 | SNP | * | map_l250_m1_e0 | * | 98.5497 | 98.7953 | 98.3053 | 89.3707 | 7135 | 87 | 7135 | 123 | 15 | 12.1951 | |
| hfeng-pmm2 | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 93.5280 | 82 | 1 | 82 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m1_e0 | * | 98.9155 | 98.7952 | 99.0361 | 84.0996 | 820 | 10 | 822 | 8 | 2 | 25.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 92.6060 | 82 | 1 | 82 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I6_15 | segdup | het | 98.7952 | 98.7952 | 98.7952 | 92.9780 | 82 | 1 | 82 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 92.8007 | 82 | 1 | 82 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 91.6836 | 82 | 1 | 82 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7373 | 98.7952 | 98.6795 | 85.8454 | 820 | 10 | 822 | 11 | 2 | 18.1818 | |
| dgrover-gatk | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 93.9394 | 82 | 1 | 82 | 0 | 0 | ||
| dgrover-gatk | SNP | tv | map_l150_m0_e0 | homalt | 99.2811 | 98.7952 | 99.7719 | 75.6572 | 1312 | 16 | 1312 | 3 | 2 | 66.6667 | |
| egarrison-hhga | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 92.1830 | 82 | 1 | 82 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | segdup | het | 95.9064 | 98.7952 | 93.1818 | 95.3733 | 82 | 1 | 82 | 6 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7394 | 98.7952 | 96.7059 | 89.6278 | 820 | 10 | 822 | 28 | 3 | 10.7143 | |
| ckim-dragen | INDEL | I6_15 | segdup | het | 94.7977 | 98.7952 | 91.1111 | 94.6429 | 82 | 1 | 82 | 8 | 0 | 0.0000 | |
| dgrover-gatk | SNP | * | map_l150_m0_e0 | * | 98.7537 | 98.7949 | 98.7125 | 82.2666 | 11887 | 145 | 11884 | 155 | 29 | 18.7097 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0866 | 98.7946 | 99.3804 | 48.6184 | 4016 | 49 | 4010 | 25 | 11 | 44.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | * | * | 99.2818 | 98.7945 | 99.7740 | 55.6693 | 144976 | 1769 | 144802 | 328 | 127 | 38.7195 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0864 | 98.7941 | 97.3887 | 79.6107 | 6800 | 83 | 6825 | 183 | 3 | 1.6393 | |
| bgallagher-sentieon | INDEL | I6_15 | * | het | 98.9304 | 98.7940 | 99.0672 | 58.9052 | 9912 | 121 | 9877 | 93 | 60 | 64.5161 | |