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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20451-20500 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | het | 94.8645 | 94.7020 | 95.0276 | 94.4740 | 858 | 48 | 860 | 45 | 4 | 8.8889 | |
| ckim-isaac | INDEL | D6_15 | map_l125_m2_e0 | het | 48.4211 | 32.3944 | 95.8333 | 94.7020 | 23 | 48 | 23 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l125_m2_e1 | het | 48.4211 | 32.3944 | 95.8333 | 94.8276 | 23 | 48 | 23 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 69.0423 | 55.5556 | 91.1765 | 83.6145 | 60 | 48 | 62 | 6 | 2 | 33.3333 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e1 | het | 96.5215 | 96.2145 | 96.8304 | 89.9905 | 1220 | 48 | 1222 | 40 | 4 | 10.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.2085 | 91.0448 | 97.6000 | 62.4906 | 488 | 48 | 488 | 12 | 10 | 83.3333 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e1 | het | 98.3512 | 98.5450 | 98.1582 | 91.6782 | 3251 | 48 | 3251 | 61 | 16 | 26.2295 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1542 | 99.4744 | 98.8359 | 77.1224 | 9085 | 48 | 9085 | 107 | 10 | 9.3458 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1542 | 99.4744 | 98.8359 | 77.1224 | 9085 | 48 | 9085 | 107 | 10 | 9.3458 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e1 | het | 97.4787 | 97.9513 | 97.0105 | 84.5478 | 2295 | 48 | 2304 | 71 | 31 | 43.6620 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | * | 97.9556 | 97.7219 | 98.1905 | 98.1653 | 2059 | 48 | 2062 | 38 | 14 | 36.8421 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 21.3115 | 0.0000 | 0.0000 | 13 | 48 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 65.6904 | 70.9091 | 61.1872 | 88.2131 | 117 | 48 | 134 | 85 | 29 | 34.1176 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | het | 95.3423 | 94.3860 | 96.3183 | 91.2356 | 807 | 48 | 811 | 31 | 4 | 12.9032 | |
| bgallagher-sentieon | SNP | * | map_l125_m0_e0 | homalt | 99.5370 | 99.2849 | 99.7904 | 67.2503 | 6664 | 48 | 6664 | 14 | 10 | 71.4286 | |
| bgallagher-sentieon | SNP | tv | map_l150_m1_e0 | het | 98.5918 | 99.3090 | 97.8850 | 78.8267 | 6898 | 48 | 6896 | 149 | 20 | 13.4228 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e0 | het | 98.6238 | 99.3381 | 97.9198 | 79.8967 | 7204 | 48 | 7202 | 153 | 20 | 13.0719 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e1 | het | 98.6417 | 99.3468 | 97.9466 | 79.9186 | 7300 | 48 | 7298 | 153 | 20 | 13.0719 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.1539 | 96.1783 | 98.1494 | 73.9632 | 1208 | 48 | 1485 | 28 | 21 | 75.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 35.1351 | 0.0000 | 0.0000 | 26 | 48 | 0 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.4646 | 97.0242 | 97.9090 | 63.2516 | 1565 | 48 | 2669 | 57 | 50 | 87.7193 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2829 | 94.9045 | 97.7021 | 68.8472 | 894 | 48 | 1233 | 29 | 19 | 65.5172 | |
| asubramanian-gatk | SNP | * | * | hetalt | 94.8157 | 94.4891 | 95.1445 | 47.6709 | 823 | 48 | 823 | 42 | 2 | 4.7619 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4061 | 98.8192 | 100.0000 | 47.1948 | 4017 | 48 | 4019 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.2995 | 98.7836 | 99.8207 | 68.8894 | 3898 | 48 | 3898 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.3231 | 98.8244 | 99.8268 | 71.2518 | 4035 | 48 | 4035 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | tv | map_l150_m2_e1 | homalt | 99.3315 | 98.8389 | 99.8290 | 71.2267 | 4086 | 48 | 4086 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.8716 | 90.2041 | 68.5057 | 80.6495 | 442 | 48 | 298 | 137 | 123 | 89.7810 | |
| asubramanian-gatk | INDEL | * | map_l250_m1_e0 | * | 86.4236 | 84.2623 | 88.6986 | 99.0516 | 257 | 48 | 259 | 33 | 3 | 9.0909 | |
| asubramanian-gatk | SNP | tv | * | hetalt | 95.7533 | 94.4891 | 97.0519 | 45.7454 | 823 | 48 | 823 | 25 | 2 | 8.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m1_e0 | * | 98.3343 | 98.6615 | 98.0094 | 85.1549 | 3538 | 48 | 3545 | 72 | 17 | 23.6111 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8513 | 99.7206 | 99.9825 | 55.1444 | 17129 | 48 | 17126 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1869 | 99.2134 | 99.1605 | 78.4314 | 6054 | 48 | 6024 | 51 | 24 | 47.0588 | |
| jlack-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.7279 | 97.8388 | 99.6332 | 70.1233 | 2173 | 48 | 2173 | 8 | 5 | 62.5000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7580 | 99.7808 | 99.7353 | 72.9432 | 21851 | 48 | 21851 | 58 | 58 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.1102 | 96.2906 | 100.0000 | 36.5079 | 1246 | 48 | 1360 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2017 | 98.7689 | 99.6382 | 66.9061 | 3851 | 48 | 3856 | 14 | 8 | 57.1429 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3683 | 98.8824 | 99.8589 | 49.4773 | 4247 | 48 | 4247 | 6 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.0102 | 98.4000 | 99.6280 | 74.9024 | 2952 | 48 | 2946 | 11 | 3 | 27.2727 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.1102 | 96.2906 | 100.0000 | 36.8910 | 1246 | 48 | 1360 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | * | 87.8220 | 95.5882 | 81.2230 | 87.7784 | 1040 | 48 | 1315 | 304 | 98 | 32.2368 | |
| gduggal-snapvard | INDEL | D1_5 | segdup | homalt | 90.9566 | 86.6295 | 95.7386 | 91.9173 | 311 | 48 | 337 | 15 | 15 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.0645 | 96.5066 | 93.6649 | 54.5130 | 1326 | 48 | 19117 | 1293 | 1186 | 91.7247 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2200 | 98.0630 | 92.5373 | 51.0491 | 2430 | 48 | 2418 | 195 | 3 | 1.5385 | |
| ghariani-varprowl | INDEL | D6_15 | segdup | hetalt | 0.0000 | 2.0408 | 0.0000 | 0.0000 | 1 | 48 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 48 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 73.6289 | 89.6552 | 62.4633 | 66.7479 | 416 | 48 | 426 | 256 | 253 | 98.8281 | |
| gduggal-snapplat | INDEL | D16_PLUS | map_l100_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 48 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D16_PLUS | map_l100_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 48 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D6_15 | map_siren | hetalt | 64.3533 | 51.5152 | 85.7143 | 76.2712 | 51 | 48 | 12 | 2 | 2 | 100.0000 | |