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Truth Challenge
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Explore HG002 comparison results
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Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
63601-63650 / 86044 show all | |||||||||||||||
gduggal-snapplat | INDEL | * | map_l150_m2_e1 | het | 79.5622 | 74.4589 | 85.4167 | 95.3345 | 688 | 236 | 738 | 126 | 19 | 15.0794 | |
mlin-fermikit | INDEL | * | map_l150_m1_e0 | * | 64.0388 | 51.4948 | 84.6626 | 83.0385 | 689 | 649 | 690 | 125 | 100 | 80.0000 | |
bgallagher-sentieon | INDEL | D1_5 | segdup | het | 99.4950 | 99.5665 | 99.4236 | 94.8997 | 689 | 3 | 690 | 4 | 0 | 0.0000 | |
gduggal-bwavard | INDEL | * | map_l125_m1_e0 | homalt | 96.4972 | 94.1257 | 98.9914 | 79.7491 | 689 | 43 | 687 | 7 | 4 | 57.1429 | |
ckim-gatk | INDEL | D1_5 | segdup | het | 97.3199 | 99.5665 | 95.1724 | 96.5122 | 689 | 3 | 690 | 35 | 0 | 0.0000 | |
hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.7814 | 98.0085 | 99.5665 | 42.6678 | 689 | 14 | 689 | 3 | 2 | 66.6667 | |
jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.8775 | 93.1174 | 92.6389 | 73.8277 | 690 | 51 | 667 | 53 | 47 | 88.6792 | |
hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.9247 | 98.1508 | 99.7110 | 42.4771 | 690 | 13 | 690 | 2 | 1 | 50.0000 | |
ckim-dragen | INDEL | D1_5 | segdup | het | 96.2915 | 99.7110 | 93.0988 | 95.7597 | 690 | 2 | 688 | 51 | 0 | 0.0000 | |
mlin-fermikit | INDEL | D1_5 | map_l125_m2_e1 | * | 70.7275 | 59.6370 | 86.8852 | 80.8130 | 690 | 467 | 689 | 104 | 91 | 87.5000 | |
mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 86.4488 | 81.0811 | 92.5776 | 87.3872 | 690 | 161 | 686 | 55 | 9 | 16.3636 | |
ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.6086 | 92.9919 | 94.2335 | 70.5102 | 690 | 52 | 670 | 41 | 20 | 48.7805 | |
gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 72.8617 | 57.7406 | 98.7124 | 51.8595 | 690 | 505 | 690 | 9 | 9 | 100.0000 | |
gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 67.9468 | 52.3520 | 96.7742 | 75.1654 | 690 | 628 | 690 | 23 | 22 | 95.6522 | |
raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.8539 | 98.1508 | 99.5671 | 42.1053 | 690 | 13 | 690 | 3 | 2 | 66.6667 | |
dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.2389 | 79.1284 | 99.7203 | 27.1152 | 690 | 182 | 713 | 2 | 2 | 100.0000 | |
ckim-vqsr | INDEL | D1_5 | map_l150_m1_e0 | * | 96.0363 | 96.2343 | 95.8391 | 92.4668 | 690 | 27 | 691 | 30 | 4 | 13.3333 | |
egarrison-hhga | INDEL | D1_5 | segdup | het | 98.1532 | 99.7110 | 96.6434 | 93.9982 | 690 | 2 | 691 | 24 | 21 | 87.5000 | |
ltrigg-rtg2 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.8071 | 96.3738 | 99.2837 | 81.2818 | 691 | 26 | 693 | 5 | 1 | 20.0000 | |
qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.7774 | 93.1267 | 90.4666 | 45.7994 | 691 | 51 | 4033 | 425 | 374 | 88.0000 | |
gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 55.7555 | 54.6245 | 56.9343 | 95.0071 | 691 | 574 | 702 | 531 | 51 | 9.6045 | |
astatham-gatk | INDEL | D1_5 | map_l125_m1_e0 | het | 95.9766 | 95.1791 | 96.7877 | 87.8644 | 691 | 35 | 693 | 23 | 3 | 13.0435 | |
astatham-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 96.6476 | 96.3738 | 96.9231 | 89.6121 | 691 | 26 | 693 | 22 | 4 | 18.1818 | |
astatham-gatk | SNP | tv | map_l250_m0_e0 | * | 93.9497 | 90.3268 | 97.8754 | 93.7472 | 691 | 74 | 691 | 15 | 5 | 33.3333 | |
astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.8784 | 96.1111 | 99.7118 | 87.9785 | 692 | 28 | 692 | 2 | 2 | 100.0000 | |
asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1404 | 98.4353 | 99.8557 | 46.9778 | 692 | 11 | 692 | 1 | 1 | 100.0000 | |
ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 33.7984 | 28.7018 | 41.0959 | 58.9386 | 692 | 1719 | 690 | 989 | 957 | 96.7644 | |
gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 60.4335 | 56.1688 | 65.3989 | 55.6013 | 692 | 540 | 705 | 373 | 177 | 47.4531 | |
ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.4470 | 65.9048 | 88.2202 | 66.0139 | 692 | 358 | 689 | 92 | 70 | 76.0870 | |
mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.1960 | 96.5132 | 81.1986 | 71.1330 | 692 | 25 | 691 | 160 | 160 | 100.0000 | |
mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 57.5970 | 40.5152 | 99.5822 | 36.4039 | 692 | 1016 | 715 | 3 | 3 | 100.0000 | |
hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.9986 | 98.4353 | 99.5683 | 42.5145 | 692 | 11 | 692 | 3 | 2 | 66.6667 | |
egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.9318 | 98.4353 | 86.2344 | 39.0430 | 692 | 11 | 758 | 121 | 116 | 95.8678 | |
cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1404 | 98.4353 | 99.8557 | 31.3181 | 692 | 11 | 1384 | 2 | 1 | 50.0000 | |
egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.7816 | 96.6527 | 91.0761 | 57.6667 | 693 | 24 | 694 | 68 | 49 | 72.0588 | |
ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 67.8919 | 98.5775 | 51.7751 | 39.8577 | 693 | 10 | 700 | 652 | 649 | 99.5399 | |
hfeng-pmm1 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.8825 | 96.6527 | 99.1441 | 85.9378 | 693 | 24 | 695 | 6 | 1 | 16.6667 | |
gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.8315 | 84.1019 | 79.6804 | 71.0030 | 693 | 131 | 698 | 178 | 114 | 64.0449 | |
gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.5556 | 75.8206 | 98.1586 | 82.6237 | 693 | 221 | 693 | 13 | 2 | 15.3846 | |
gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.6110 | 52.5360 | 98.8604 | 77.0138 | 694 | 627 | 694 | 8 | 6 | 75.0000 | |
gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.5847 | 96.7922 | 79.9769 | 63.6211 | 694 | 23 | 691 | 173 | 173 | 100.0000 | |
gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.4875 | 91.0761 | 78.7879 | 71.3873 | 694 | 68 | 702 | 189 | 31 | 16.4021 | |
jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.3558 | 98.7198 | 100.0000 | 43.9418 | 694 | 9 | 694 | 0 | 0 | ||
jpowers-varprowl | INDEL | D1_5 | map_l125_m1_e0 | het | 94.6866 | 95.7300 | 93.6658 | 88.0554 | 695 | 31 | 695 | 47 | 26 | 55.3191 | |
gduggal-bwavard | INDEL | D1_5 | map_l150_m1_e0 | * | 91.1702 | 96.9317 | 86.0553 | 90.3175 | 695 | 22 | 685 | 111 | 13 | 11.7117 | |
gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 70.4093 | 98.8620 | 54.6740 | 41.5519 | 695 | 8 | 696 | 577 | 569 | 98.6135 | |
cchapple-custom | INDEL | D1_5 | map_l150_m1_e0 | * | 95.8402 | 96.9317 | 94.7730 | 87.3013 | 695 | 22 | 689 | 38 | 5 | 13.1579 | |
asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0122 | 93.7922 | 96.2644 | 75.4150 | 695 | 46 | 670 | 26 | 21 | 80.7692 | |
asubramanian-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 90.3207 | 83.7349 | 98.0309 | 89.6582 | 695 | 135 | 697 | 14 | 1 | 7.1429 | |
mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.0443 | 87.5315 | 94.8509 | 85.4150 | 695 | 99 | 700 | 38 | 2 | 5.2632 |