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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20801-20850 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jlack-gatk | SNP | tv | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.5540 | 97.9189 | 99.1972 | 85.2279 | 894 | 19 | 865 | 7 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 96.1107 | 93.3110 | 99.0836 | 51.0924 | 837 | 60 | 865 | 8 | 8 | 100.0000 | |
| ghariani-varprowl | INDEL | * | segdup | homalt | 93.7217 | 90.2083 | 97.5197 | 91.8211 | 866 | 94 | 865 | 22 | 17 | 77.2727 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 38.4337 | 40.5674 | 36.5133 | 81.1880 | 572 | 838 | 865 | 1504 | 300 | 19.9468 | |
| jpowers-varprowl | INDEL | * | segdup | homalt | 93.9252 | 90.2083 | 97.9615 | 91.6422 | 866 | 94 | 865 | 18 | 17 | 94.4444 | |
| jmaeng-gatk | INDEL | * | map_l125_m0_e0 | * | 95.4196 | 97.8458 | 93.1109 | 92.8522 | 863 | 19 | 865 | 64 | 6 | 9.3750 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.4424 | 97.6999 | 99.1963 | 85.4542 | 892 | 21 | 864 | 7 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m2_e0 | het | 97.0759 | 95.2539 | 98.9691 | 83.7521 | 863 | 43 | 864 | 9 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 89.2573 | 89.3506 | 89.1641 | 59.4561 | 344 | 41 | 864 | 105 | 76 | 72.3810 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | * | 92.6519 | 97.7324 | 88.0734 | 92.1312 | 862 | 20 | 864 | 117 | 6 | 5.1282 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.3912 | 98.6014 | 98.1818 | 44.9656 | 846 | 12 | 864 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 88.7830 | 97.7024 | 81.3559 | 76.1187 | 893 | 21 | 864 | 198 | 3 | 1.5152 | |
| egarrison-hhga | SNP | * | * | hetalt | 99.1394 | 99.1963 | 99.0826 | 48.4024 | 864 | 7 | 864 | 8 | 8 | 100.0000 | |
| egarrison-hhga | SNP | tv | * | hetalt | 99.1394 | 99.1963 | 99.0826 | 48.4024 | 864 | 7 | 864 | 8 | 8 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.8542 | 94.3107 | 99.5386 | 63.3094 | 862 | 52 | 863 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | * | 97.4564 | 97.6190 | 97.2943 | 90.7643 | 861 | 21 | 863 | 24 | 6 | 25.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m2_e1 | * | 98.8533 | 98.9655 | 98.7414 | 87.2204 | 861 | 9 | 863 | 11 | 2 | 18.1818 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.3228 | 86.1277 | 97.1847 | 65.3666 | 863 | 139 | 863 | 25 | 22 | 88.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.4819 | 91.2377 | 87.7925 | 91.7885 | 833 | 80 | 863 | 120 | 5 | 4.1667 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0631 | 98.4795 | 99.6536 | 52.7550 | 842 | 13 | 863 | 3 | 1 | 33.3333 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9417 | 99.8834 | 100.0000 | 46.3975 | 857 | 1 | 863 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.8420 | 95.3291 | 98.4036 | 71.9360 | 898 | 44 | 863 | 14 | 8 | 57.1429 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.0284 | 92.5690 | 93.4924 | 72.3704 | 872 | 70 | 862 | 60 | 55 | 91.6667 | |
| jli-custom | INDEL | I1_5 | map_l125_m2_e1 | * | 99.1939 | 98.9655 | 99.4233 | 85.7143 | 861 | 9 | 862 | 5 | 2 | 40.0000 | |
| gduggal-bwavard | INDEL | * | segdup | homalt | 94.7011 | 90.3125 | 99.5381 | 91.1777 | 867 | 93 | 862 | 4 | 4 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 91.7090 | 85.4430 | 98.9667 | 76.0780 | 270 | 46 | 862 | 9 | 9 | 100.0000 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | * | 97.8989 | 97.7324 | 98.0660 | 88.3592 | 862 | 20 | 862 | 17 | 6 | 35.2941 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 97.7866 | 98.8506 | 96.7452 | 90.5203 | 860 | 10 | 862 | 29 | 3 | 10.3448 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e1 | * | 98.7952 | 98.8506 | 98.7400 | 87.1353 | 860 | 10 | 862 | 11 | 2 | 18.1818 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 35.7126 | 30.6097 | 42.8571 | 50.7598 | 738 | 1673 | 861 | 1148 | 864 | 75.2613 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5949 | 99.6524 | 99.5376 | 63.4713 | 860 | 3 | 861 | 4 | 3 | 75.0000 | |
| gduggal-bwavard | INDEL | I6_15 | HG002complexvar | homalt | 84.0374 | 73.1466 | 98.7385 | 35.6458 | 888 | 326 | 861 | 11 | 9 | 81.8182 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | hetalt | 99.9420 | 99.8840 | 100.0000 | 22.1519 | 861 | 1 | 861 | 0 | 0 | ||
| rpoplin-dv42 | SNP | tv | HG002compoundhet | hetalt | 99.9420 | 99.8840 | 100.0000 | 22.1519 | 861 | 1 | 861 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6526 | 99.6524 | 99.6528 | 63.6057 | 860 | 3 | 861 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 98.8504 | 98.7356 | 98.9655 | 87.9150 | 859 | 11 | 861 | 9 | 2 | 22.2222 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.2635 | 98.1273 | 98.4000 | 38.2934 | 262 | 5 | 861 | 14 | 8 | 57.1429 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5374 | 99.6524 | 99.4226 | 64.3621 | 860 | 3 | 861 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5374 | 99.6524 | 99.4226 | 63.8866 | 860 | 3 | 861 | 5 | 2 | 40.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m1_e0 | * | 86.5802 | 95.6764 | 79.0634 | 89.6914 | 686 | 31 | 861 | 228 | 53 | 23.2456 | |
| gduggal-snapvard | INDEL | D1_5 | segdup | het | 90.8046 | 97.6879 | 84.8276 | 95.5414 | 676 | 16 | 861 | 154 | 123 | 79.8701 | |
| gduggal-snapfb | SNP | * | HG002compoundhet | hetalt | 97.7828 | 99.7680 | 95.8751 | 27.4859 | 860 | 2 | 860 | 37 | 8 | 21.6216 | |
| gduggal-snapfb | SNP | tv | HG002compoundhet | hetalt | 97.7828 | 99.7680 | 95.8751 | 27.4859 | 860 | 2 | 860 | 37 | 8 | 21.6216 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 37.9771 | 33.2554 | 44.2615 | 81.8105 | 711 | 1427 | 860 | 1083 | 11 | 1.0157 | |
| gduggal-snapvard | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 93.2755 | 88.9976 | 0 | 0 | 860 | 62 | 31 | 50.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5944 | 99.5365 | 99.6524 | 64.2502 | 859 | 4 | 860 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | het | 94.8645 | 94.7020 | 95.0276 | 94.4740 | 858 | 48 | 860 | 45 | 4 | 8.8889 | |
| rpoplin-dv42 | INDEL | * | map_l125_m0_e0 | * | 97.5579 | 97.2789 | 97.8385 | 99.0840 | 858 | 24 | 860 | 19 | 7 | 36.8421 | |