PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2951-3000 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | * | HG002complexvar | homalt | 99.5434 | 99.8039 | 99.2843 | 57.4048 | 26974 | 53 | 26911 | 194 | 188 | 96.9072 | |
| astatham-gatk | SNP | * | map_l150_m2_e0 | * | 91.4701 | 84.5033 | 99.6888 | 80.0769 | 26916 | 4936 | 26910 | 84 | 40 | 47.6190 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | homalt | 99.4823 | 99.5116 | 99.4530 | 57.3903 | 26895 | 132 | 26910 | 148 | 101 | 68.2432 | |
| ndellapenna-hhga | SNP | * | map_l100_m1_e0 | homalt | 99.7849 | 99.6482 | 99.9220 | 59.8338 | 26908 | 95 | 26908 | 21 | 19 | 90.4762 | |
| jli-custom | SNP | * | map_l100_m1_e0 | homalt | 99.7923 | 99.6482 | 99.9369 | 57.0814 | 26908 | 95 | 26908 | 17 | 16 | 94.1176 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.8643 | 91.4147 | 84.5794 | 78.5110 | 26247 | 2465 | 26903 | 4905 | 1242 | 25.3211 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.8643 | 91.4147 | 84.5794 | 78.5110 | 26247 | 2465 | 26903 | 4905 | 1242 | 25.3211 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | * | 92.3506 | 90.1368 | 94.6759 | 61.0439 | 27005 | 2955 | 26887 | 1512 | 1502 | 99.3386 | |
| rpoplin-dv42 | INDEL | * | HG002complexvar | homalt | 99.6016 | 99.4265 | 99.7773 | 55.5190 | 26872 | 155 | 26879 | 60 | 53 | 88.3333 | |
| dgrover-gatk | SNP | * | map_l100_m1_e0 | homalt | 99.7105 | 99.5001 | 99.9219 | 58.2002 | 26868 | 135 | 26868 | 21 | 16 | 76.1905 | |
| rpoplin-dv42 | SNP | * | map_l100_m1_e0 | homalt | 99.6291 | 99.4667 | 99.7919 | 61.1512 | 26859 | 144 | 26860 | 56 | 52 | 92.8571 | |
| ckim-dragen | SNP | * | map_l100_m1_e0 | homalt | 99.6437 | 99.4186 | 99.8698 | 55.6951 | 26846 | 157 | 26851 | 35 | 32 | 91.4286 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | het | 80.6718 | 90.3580 | 72.8613 | 71.8309 | 27055 | 2887 | 26845 | 9999 | 2187 | 21.8722 | |
| qzeng-custom | INDEL | * | HG002complexvar | homalt | 98.4127 | 98.7679 | 98.0601 | 51.6191 | 26694 | 333 | 26841 | 531 | 325 | 61.2053 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| cchapple-custom | SNP | * | map_l100_m2_e0 | homalt | 98.7307 | 97.5003 | 99.9925 | 58.6733 | 26835 | 688 | 26824 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | SNP | * | map_l100_m1_e0 | homalt | 99.5971 | 99.3186 | 99.8771 | 62.3452 | 26819 | 184 | 26819 | 33 | 19 | 57.5758 | |
| astatham-gatk | SNP | * | map_l100_m1_e0 | homalt | 99.6081 | 99.3075 | 99.9106 | 57.8259 | 26816 | 187 | 26816 | 24 | 19 | 79.1667 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e0 | homalt | 98.4327 | 97.2060 | 99.6907 | 70.5354 | 26754 | 769 | 26756 | 83 | 30 | 36.1446 | |
| ckim-isaac | SNP | ti | map_siren | homalt | 82.7288 | 70.5560 | 99.9776 | 44.7961 | 26752 | 11164 | 26753 | 6 | 6 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5010 | 99.4006 | 99.6016 | 52.3483 | 25207 | 152 | 26749 | 107 | 95 | 88.7850 | |
| jpowers-varprowl | SNP | * | map_l100_m1_e0 | homalt | 99.3441 | 99.0075 | 99.6831 | 63.9191 | 26735 | 268 | 26735 | 85 | 65 | 76.4706 | |
| ckim-isaac | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.8280 | 94.9712 | 98.7588 | 48.1636 | 26553 | 1406 | 26734 | 336 | 168 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_l100_m1_e0 | homalt | 99.3219 | 98.9853 | 99.6607 | 61.9023 | 26729 | 274 | 26729 | 91 | 64 | 70.3297 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e1 | homalt | 99.8719 | 99.8597 | 99.8841 | 65.3160 | 27757 | 39 | 26718 | 31 | 16 | 51.6129 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 81.3386 | 70.4818 | 96.1491 | 65.8212 | 26714 | 11188 | 26716 | 1070 | 602 | 56.2617 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | homalt | 99.3858 | 98.8816 | 99.8952 | 58.5121 | 26701 | 302 | 26701 | 28 | 22 | 78.5714 | |
| egarrison-hhga | INDEL | * | HG002complexvar | homalt | 98.5044 | 98.8604 | 98.1509 | 53.6323 | 26719 | 308 | 26700 | 503 | 354 | 70.3777 | |
| ndellapenna-hhga | INDEL | * | HG002complexvar | homalt | 98.2704 | 98.7420 | 97.8033 | 53.5832 | 26687 | 340 | 26669 | 599 | 404 | 67.4457 | |
| cchapple-custom | INDEL | D6_15 | * | * | 97.8623 | 97.1869 | 98.5472 | 48.1960 | 25358 | 734 | 26658 | 393 | 348 | 88.5496 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6687 | 97.3228 | 98.0171 | 65.4411 | 26937 | 741 | 26644 | 539 | 197 | 36.5492 | |
| cchapple-custom | INDEL | * | HG002complexvar | homalt | 99.4073 | 99.4302 | 99.3845 | 51.9433 | 26873 | 154 | 26641 | 165 | 156 | 94.5455 | |
| gduggal-bwavard | SNP | * | map_l100_m2_e1 | homalt | 98.6017 | 97.3521 | 99.8837 | 62.7989 | 27060 | 736 | 26631 | 31 | 25 | 80.6452 | |
| ltrigg-rtg2 | INDEL | * | HG002complexvar | homalt | 99.4106 | 98.9640 | 99.8613 | 51.7784 | 26746 | 280 | 26631 | 37 | 27 | 72.9730 | |
| ltrigg-rtg1 | INDEL | * | HG002complexvar | homalt | 99.4013 | 98.9677 | 99.8388 | 52.4987 | 26747 | 279 | 26629 | 43 | 32 | 74.4186 | |
| cchapple-custom | SNP | * | HG002compoundhet | * | 99.2099 | 98.9002 | 99.5216 | 40.1325 | 25538 | 284 | 26628 | 128 | 97 | 75.7812 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.7665 | 97.0048 | 92.6291 | 69.2144 | 26849 | 829 | 26579 | 2115 | 167 | 7.8960 | |
| gduggal-snapplat | SNP | * | map_l125_m1_e0 | het | 93.6975 | 93.4770 | 93.9190 | 83.9811 | 26540 | 1852 | 26565 | 1720 | 915 | 53.1977 | |
| anovak-vg | SNP | * | map_l125_m2_e1 | het | 77.5666 | 90.5162 | 67.8585 | 78.1432 | 26829 | 2811 | 26551 | 12576 | 2737 | 21.7637 | |
| mlin-fermikit | SNP | * | map_l100_m2_e1 | het | 71.9034 | 56.5824 | 98.6024 | 57.9966 | 26536 | 20362 | 26528 | 376 | 11 | 2.9255 | |
| anovak-vg | SNP | tv | map_siren | het | 83.8130 | 92.8414 | 76.3848 | 65.0646 | 26561 | 2048 | 26517 | 8198 | 1714 | 20.9075 | |
| ckim-gatk | SNP | tv | map_siren | het | 95.0179 | 92.6002 | 97.5652 | 74.8662 | 26492 | 2117 | 26487 | 661 | 26 | 3.9334 | |
| jmaeng-gatk | SNP | tv | map_siren | het | 94.8661 | 92.5932 | 97.2533 | 75.2567 | 26490 | 2119 | 26485 | 748 | 25 | 3.3423 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e0 | homalt | 99.8725 | 99.8583 | 99.8868 | 65.3085 | 27484 | 39 | 26466 | 30 | 16 | 53.3333 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.8647 | 92.1636 | 97.7290 | 70.8955 | 26462 | 2250 | 26465 | 615 | 21 | 3.4146 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.8647 | 92.1636 | 97.7290 | 70.8955 | 26462 | 2250 | 26465 | 615 | 21 | 3.4146 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 87.9792 | 79.5523 | 98.4030 | 81.3702 | 26440 | 6796 | 26434 | 429 | 144 | 33.5664 | |
| gduggal-bwavard | SNP | * | map_l100_m2_e0 | homalt | 98.6138 | 97.3767 | 99.8826 | 62.7969 | 26801 | 722 | 26381 | 31 | 25 | 80.6452 | |
| anovak-vg | SNP | ti | map_l125_m2_e1 | * | 81.5574 | 87.0097 | 76.7480 | 75.9636 | 26598 | 3971 | 26376 | 7991 | 1774 | 22.2000 | |