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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30051-30100 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | * | map_l100_m2_e1 | het | 84.8243 | 94.1101 | 77.2064 | 88.4817 | 2205 | 138 | 3123 | 922 | 425 | 46.0954 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 91.1118 | 85.3688 | 97.6832 | 88.4817 | 5683 | 974 | 5692 | 135 | 24 | 17.7778 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2254 | 99.0858 | 99.3653 | 88.4800 | 1409 | 13 | 1409 | 9 | 8 | 88.8889 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 36.3924 | 88.4798 | 0 | 0 | 115 | 201 | 40 | 19.9005 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m1_e0 | het | 54.4803 | 41.3043 | 80.0000 | 88.4793 | 19 | 27 | 20 | 5 | 3 | 60.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l100_m0_e0 | homalt | 97.9592 | 100.0000 | 96.0000 | 88.4793 | 24 | 0 | 24 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 23.5714 | 33.3333 | 18.2320 | 88.4787 | 1 | 2 | 33 | 148 | 6 | 4.0541 | |
| ckim-gatk | INDEL | I6_15 | map_siren | het | 96.8198 | 95.8042 | 97.8571 | 88.4774 | 137 | 6 | 137 | 3 | 1 | 33.3333 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 84.3571 | 94.2901 | 76.3174 | 88.4761 | 1222 | 74 | 1231 | 382 | 52 | 13.6126 | |
| ckim-vqsr | SNP | * | map_l125_m1_e0 | het | 80.8165 | 68.4629 | 98.6098 | 88.4760 | 19438 | 8954 | 19435 | 274 | 3 | 1.0949 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 98.3718 | 98.6911 | 98.0545 | 88.4753 | 754 | 10 | 756 | 15 | 2 | 13.3333 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1239 | 97.7673 | 98.4831 | 88.4750 | 832 | 19 | 844 | 13 | 7 | 53.8462 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e0 | * | 98.8758 | 98.7191 | 99.0331 | 88.4730 | 7784 | 101 | 7784 | 76 | 17 | 22.3684 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.5149 | 99.0050 | 98.0296 | 88.4725 | 199 | 2 | 199 | 4 | 2 | 50.0000 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e0 | * | 98.3684 | 98.7250 | 98.0144 | 88.4715 | 2168 | 28 | 2172 | 44 | 9 | 20.4545 | |
| ckim-isaac | SNP | * | segdup | het | 98.3305 | 96.7604 | 99.9523 | 88.4697 | 16756 | 561 | 16758 | 8 | 1 | 12.5000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m1_e0 | hetalt | 92.8270 | 88.7097 | 97.3451 | 88.4694 | 110 | 14 | 110 | 3 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.8992 | 89.1688 | 99.1597 | 88.4671 | 708 | 86 | 708 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | hetalt | 84.1295 | 75.8065 | 94.5055 | 88.4664 | 94 | 30 | 86 | 5 | 2 | 40.0000 | |
| ltrigg-rtg2 | SNP | tv | segdup | * | 98.9872 | 99.6132 | 98.3690 | 88.4663 | 8499 | 33 | 8504 | 141 | 21 | 14.8936 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 91.0865 | 87.4204 | 95.0735 | 88.4658 | 1098 | 158 | 1100 | 57 | 6 | 10.5263 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m0_e0 | * | 97.6181 | 98.9919 | 96.2818 | 88.4650 | 491 | 5 | 492 | 19 | 3 | 15.7895 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e1 | * | 98.7629 | 98.5597 | 98.9669 | 88.4625 | 2874 | 42 | 2874 | 30 | 4 | 13.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 78.9474 | 75.0000 | 83.3333 | 88.4615 | 6 | 2 | 5 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l150_m1_e0 | homalt | 66.6667 | 66.6667 | 66.6667 | 88.4615 | 2 | 1 | 2 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 78.9474 | 75.0000 | 83.3333 | 88.4615 | 6 | 2 | 5 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | * | map_l125_m0_e0 | hetalt | 85.7143 | 100.0000 | 75.0000 | 88.4615 | 9 | 0 | 9 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l125_m0_e0 | hetalt | 85.7143 | 100.0000 | 75.0000 | 88.4615 | 9 | 0 | 9 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | map_l150_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 88.4615 | 3 | 0 | 3 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I6_15 | map_l125_m1_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 88.4615 | 15 | 0 | 15 | 0 | 0 | ||
| qzeng-custom | INDEL | C1_5 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 58.3333 | 88.4615 | 0 | 0 | 7 | 5 | 3 | 60.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 66.6667 | 66.6667 | 66.6667 | 88.4615 | 4 | 2 | 4 | 2 | 1 | 50.0000 | |
| gduggal-snapvard | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 88.4615 | 0 | 0 | 0 | 6 | 2 | 33.3333 | ||
| gduggal-snapvard | INDEL | I6_15 | map_l150_m2_e1 | homalt | 54.5455 | 37.5000 | 100.0000 | 88.4615 | 3 | 5 | 6 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.4615 | 14 | 1 | 14 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m0_e0 | het | 88.8889 | 88.8889 | 88.8889 | 88.4615 | 8 | 1 | 8 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_l250_m1_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 88.4615 | 3 | 0 | 3 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | map_l100_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 88.4615 | 3 | 0 | 3 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | map_l100_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 88.4615 | 3 | 0 | 3 | 0 | 0 | ||
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 88.4615 | 0 | 0 | 0 | 12 | 8 | 66.6667 | ||
| anovak-vg | INDEL | D16_PLUS | map_l125_m2_e0 | het | 70.8171 | 65.0000 | 77.7778 | 88.4615 | 13 | 7 | 14 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | I6_15 | map_l125_m0_e0 | * | 63.1579 | 60.0000 | 66.6667 | 88.4615 | 9 | 6 | 16 | 8 | 3 | 37.5000 | |
| ckim-dragen | INDEL | C6_15 | * | * | 80.0000 | 100.0000 | 66.6667 | 88.4615 | 7 | 0 | 2 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | C6_15 | * | hetalt | 0.0000 | 0.0000 | 66.6667 | 88.4615 | 0 | 0 | 2 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 88.4615 | 6 | 0 | 6 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I16_PLUS | map_l150_m1_e0 | * | 42.8571 | 27.2727 | 100.0000 | 88.4615 | 3 | 8 | 3 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | segdup | homalt | 98.2111 | 96.5838 | 99.8941 | 88.4606 | 10376 | 367 | 10376 | 11 | 10 | 90.9091 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2958 | 99.4125 | 99.1794 | 88.4605 | 846 | 5 | 846 | 7 | 6 | 85.7143 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2958 | 99.4125 | 99.1794 | 88.4605 | 846 | 5 | 846 | 7 | 6 | 85.7143 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.9831 | 94.7154 | 97.2851 | 88.4595 | 233 | 13 | 215 | 6 | 3 | 50.0000 | |