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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65151-65200 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | * | * | hetalt | 98.9643 | 98.7371 | 99.1926 | 47.1341 | 860 | 11 | 860 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | * | hetalt | 98.9643 | 98.7371 | 99.1926 | 47.1341 | 860 | 11 | 860 | 7 | 7 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 28.4562 | 16.8067 | 92.7350 | 41.3166 | 860 | 4257 | 868 | 68 | 64 | 94.1176 | |
| 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-snapvard | INDEL | D1_5 | HG002complexvar | hetalt | 0.0000 | 63.6095 | 0.0000 | 0.0000 | 860 | 492 | 0 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 22.8700 | 860 | 2 | 860 | 0 | 0 | ||
| hfeng-pmm3 | SNP | tv | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 22.8700 | 860 | 2 | 860 | 0 | 0 | ||
| 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 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.8131 | 85.8283 | 96.4126 | 64.6593 | 860 | 142 | 860 | 32 | 26 | 81.2500 | |
| hfeng-pmm1 | SNP | * | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 23.0769 | 860 | 2 | 860 | 0 | 0 | ||
| hfeng-pmm1 | SNP | tv | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 23.0769 | 860 | 2 | 860 | 0 | 0 | ||
| hfeng-pmm2 | SNP | tv | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 23.2143 | 860 | 2 | 860 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 23.2143 | 860 | 2 | 860 | 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 | |
| ckim-dragen | SNP | tv | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 22.0308 | 860 | 2 | 860 | 0 | 0 | ||
| 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 | |
| ckim-dragen | SNP | * | HG002compoundhet | hetalt | 99.8839 | 99.7680 | 100.0000 | 22.0308 | 860 | 2 | 860 | 0 | 0 | ||
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5931 | 99.6524 | 99.5338 | 59.0453 | 860 | 3 | 854 | 4 | 3 | 75.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 97.7866 | 98.8506 | 96.7452 | 90.5203 | 860 | 10 | 862 | 29 | 3 | 10.3448 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 33.8478 | 32.4294 | 35.3960 | 74.1660 | 861 | 1794 | 858 | 1566 | 1515 | 96.7433 | |
| jli-custom | INDEL | I1_5 | map_l125_m2_e1 | * | 99.1939 | 98.9655 | 99.4233 | 85.7143 | 861 | 9 | 862 | 5 | 2 | 40.0000 | |
| eyeh-varpipe | SNP | * | HG002compoundhet | hetalt | 99.9219 | 99.8840 | 99.9599 | 21.9998 | 861 | 1 | 7478 | 3 | 2 | 66.6667 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | hetalt | 99.9052 | 99.8840 | 99.9265 | 25.0046 | 861 | 1 | 4079 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | * | 97.4564 | 97.6190 | 97.2943 | 90.7643 | 861 | 21 | 863 | 24 | 6 | 25.0000 | |
| 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 | ||
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m2_e1 | * | 98.8533 | 98.9655 | 98.7414 | 87.2204 | 861 | 9 | 863 | 11 | 2 | 18.1818 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | * | 92.6519 | 97.7324 | 88.0734 | 92.1312 | 862 | 20 | 864 | 117 | 6 | 5.1282 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | * | 97.8989 | 97.7324 | 98.0660 | 88.3592 | 862 | 20 | 862 | 17 | 6 | 35.2941 | |
| ciseli-custom | INDEL | * | * | hetalt | 0.0000 | 3.4156 | 0.0000 | 0.0000 | 862 | 24375 | 0 | 0 | 0 | ||
| 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 | |
| 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 | |
| jmaeng-gatk | INDEL | * | map_l125_m0_e0 | * | 95.4196 | 97.8458 | 93.1109 | 92.8522 | 863 | 19 | 865 | 64 | 6 | 9.3750 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m2_e0 | het | 97.0759 | 95.2539 | 98.9691 | 83.7521 | 863 | 43 | 864 | 9 | 0 | 0.0000 | |
| 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-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.7699 | 98.6301 | 94.9785 | 83.2774 | 864 | 12 | 662 | 35 | 33 | 94.2857 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.9195 | 98.7443 | 89.5442 | 81.8359 | 865 | 11 | 668 | 78 | 76 | 97.4359 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 53.0600 | 50.0000 | 56.5189 | 40.9091 | 865 | 865 | 867 | 667 | 662 | 99.2504 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.3799 | 94.7426 | 98.0747 | 85.1647 | 865 | 48 | 866 | 17 | 10 | 58.8235 | |
| jpowers-varprowl | INDEL | * | segdup | homalt | 93.9252 | 90.2083 | 97.9615 | 91.6422 | 866 | 94 | 865 | 18 | 17 | 94.4444 | |
| 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 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.2944 | 90.1145 | 92.5056 | 71.8602 | 866 | 95 | 827 | 67 | 61 | 91.0448 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 85.6204 | 89.4628 | 82.0945 | 59.1015 | 866 | 102 | 2728 | 595 | 253 | 42.5210 | |
| ghariani-varprowl | INDEL | * | segdup | homalt | 93.7217 | 90.2083 | 97.5197 | 91.8211 | 866 | 94 | 865 | 22 | 17 | 77.2727 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e0 | het | 96.9800 | 95.5850 | 98.4163 | 88.7575 | 866 | 40 | 870 | 14 | 1 | 7.1429 | |
| gduggal-snapvard | SNP | ti | map_l250_m0_e0 | het | 74.2218 | 92.7195 | 61.8773 | 94.8028 | 866 | 68 | 857 | 528 | 16 | 3.0303 | |
| gduggal-snapfb | SNP | ti | map_l250_m0_e0 | het | 92.8266 | 92.8266 | 92.8266 | 90.7653 | 867 | 67 | 867 | 67 | 29 | 43.2836 | |