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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20301-20350 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.2615 | 97.1904 | 89.6378 | 74.6299 | 934 | 27 | 891 | 103 | 93 | 90.2913 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.3915 | 97.1904 | 95.6056 | 75.0334 | 934 | 27 | 892 | 41 | 38 | 92.6829 | |
| mlin-fermikit | INDEL | * | segdup | homalt | 97.4948 | 97.2917 | 97.6987 | 92.4653 | 934 | 26 | 934 | 22 | 21 | 95.4545 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.0781 | 96.4876 | 95.6720 | 82.3695 | 934 | 34 | 840 | 38 | 30 | 78.9474 | |
| hfeng-pmm2 | SNP | tv | map_l250_m2_e0 | homalt | 99.4146 | 99.6798 | 99.1507 | 88.1241 | 934 | 3 | 934 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e0 | homalt | 99.4146 | 99.6798 | 99.1507 | 88.0623 | 934 | 3 | 934 | 8 | 4 | 50.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0981 | 98.2124 | 100.0000 | 84.5390 | 934 | 17 | 934 | 0 | 0 | ||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8871 | 98.1073 | 99.6795 | 84.5007 | 933 | 18 | 933 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e0 | homalt | 99.3610 | 99.5731 | 99.1498 | 88.0265 | 933 | 4 | 933 | 8 | 4 | 50.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1591 | 97.0864 | 89.5372 | 74.7588 | 933 | 28 | 890 | 104 | 94 | 90.3846 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 49.8117 | 33.2739 | 99.0333 | 46.0603 | 933 | 1871 | 922 | 9 | 8 | 88.8889 | |
| eyeh-varpipe | SNP | tv | map_l250_m2_e0 | homalt | 99.6784 | 99.5731 | 99.7840 | 89.6709 | 933 | 4 | 924 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3658 | 97.2888 | 99.4670 | 68.3001 | 933 | 26 | 933 | 5 | 5 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.9887 | 87.7705 | 88.2080 | 78.0159 | 933 | 130 | 950 | 127 | 70 | 55.1181 | |
| qzeng-custom | INDEL | I6_15 | HG002complexvar | hetalt | 86.3689 | 76.2878 | 99.5200 | 53.0075 | 933 | 290 | 622 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3545 | 97.0864 | 89.8990 | 74.7771 | 933 | 28 | 890 | 100 | 90 | 90.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.8342 | 75.6494 | 91.5271 | 45.0163 | 932 | 300 | 929 | 86 | 62 | 72.0930 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4161 | 97.1846 | 99.6791 | 68.7813 | 932 | 27 | 932 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 36.7074 | 0.0000 | 0.0000 | 932 | 1607 | 0 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.3664 | 93.9516 | 62.9198 | 85.7017 | 932 | 60 | 918 | 541 | 10 | 1.8484 | |
| gduggal-snapplat | INDEL | D1_5 | map_l125_m2_e1 | * | 85.6170 | 80.5532 | 91.3601 | 93.0292 | 932 | 225 | 1068 | 101 | 21 | 20.7921 | |
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 83.9832 | 79.7263 | 88.7204 | 58.7246 | 932 | 237 | 936 | 119 | 92 | 77.3109 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e0 | homalt | 77.0808 | 73.9096 | 80.5363 | 81.0585 | 932 | 329 | 931 | 225 | 197 | 87.5556 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m2_e0 | homalt | 99.6791 | 99.4664 | 99.8928 | 87.0650 | 932 | 5 | 932 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 84.3192 | 79.7263 | 89.4737 | 58.7771 | 932 | 237 | 935 | 110 | 93 | 84.5455 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 89.1696 | 81.5951 | 98.2942 | 69.4959 | 931 | 210 | 922 | 16 | 16 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.2596 | 74.3610 | 99.9015 | 32.1524 | 931 | 321 | 1014 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1494 | 96.8783 | 89.6970 | 74.8348 | 931 | 30 | 888 | 102 | 92 | 90.1961 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 63.5187 | 93.8508 | 48.0041 | 71.9172 | 931 | 61 | 938 | 1016 | 8 | 0.7874 | |
| raldana-dualsentieon | SNP | tv | map_l250_m2_e0 | homalt | 99.4658 | 99.3597 | 99.5722 | 85.2640 | 931 | 6 | 931 | 4 | 2 | 50.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m2_e0 | homalt | 99.6788 | 99.3597 | 100.0000 | 85.3155 | 931 | 6 | 931 | 0 | 0 | ||
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | homalt | 84.8014 | 75.8761 | 96.1064 | 87.1554 | 931 | 296 | 1012 | 41 | 2 | 4.8781 | |
| anovak-vg | INDEL | * | segdup | het | 72.6201 | 63.5061 | 84.7882 | 95.6374 | 931 | 535 | 981 | 176 | 91 | 51.7045 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.9624 | 97.8970 | 88.5014 | 84.9075 | 931 | 20 | 939 | 122 | 1 | 0.8197 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 70.9064 | 96.1777 | 56.1521 | 58.9971 | 931 | 37 | 1506 | 1176 | 1140 | 96.9388 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | hetalt | 94.0808 | 91.9052 | 96.3618 | 47.7926 | 931 | 82 | 980 | 37 | 37 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.8572 | 96.8783 | 89.1566 | 74.3497 | 931 | 30 | 888 | 108 | 98 | 90.7407 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8310 | 97.7918 | 99.8926 | 85.6659 | 930 | 21 | 930 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | tv | map_l250_m2_e0 | homalt | 99.1471 | 99.2529 | 99.0415 | 84.5432 | 930 | 7 | 930 | 9 | 7 | 77.7778 | |
| eyeh-varpipe | INDEL | * | segdup | homalt | 94.0927 | 96.8750 | 91.4657 | 93.3366 | 930 | 30 | 986 | 92 | 89 | 96.7391 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e1 | homalt | 98.9362 | 98.3087 | 99.5717 | 86.7386 | 930 | 16 | 930 | 4 | 3 | 75.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 84.9703 | 74.2812 | 99.2529 | 37.7409 | 930 | 322 | 930 | 7 | 7 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 51.3821 | 35.1740 | 95.2929 | 41.6005 | 930 | 1714 | 911 | 45 | 35 | 77.7778 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6891 | 96.9760 | 98.4127 | 66.3940 | 930 | 29 | 930 | 15 | 13 | 86.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.3087 | 97.3822 | 99.2529 | 77.8277 | 930 | 25 | 930 | 7 | 5 | 71.4286 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.8956 | 97.3822 | 98.4144 | 74.9934 | 930 | 25 | 931 | 15 | 13 | 86.6667 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002complexvar | hetalt | 79.8795 | 68.7130 | 95.3795 | 77.9155 | 929 | 423 | 867 | 42 | 39 | 92.8571 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e0 | homalt | 99.4647 | 99.1462 | 99.7852 | 87.5551 | 929 | 8 | 929 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e1 | homalt | 98.9350 | 98.2030 | 99.6781 | 89.3193 | 929 | 17 | 929 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 57.3590 | 53.6994 | 61.5538 | 40.3800 | 929 | 801 | 927 | 579 | 570 | 98.4456 | |