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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85001-85050 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | ti | HG002compoundhet | het | 78.6871 | 89.5844 | 70.1534 | 57.2786 | 8515 | 990 | 8645 | 3678 | 282 | 7.6672 | |
| gduggal-snapplat | INDEL | D1_5 | HG002compoundhet | het | 31.7181 | 49.3634 | 23.3658 | 68.0565 | 853 | 875 | 1126 | 3693 | 1755 | 47.5223 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 75.9168 | 99.5247 | 61.3615 | 46.7806 | 5654 | 27 | 5868 | 3695 | 3649 | 98.7551 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 93.9659 | 93.6956 | 94.2379 | 71.6964 | 60369 | 4062 | 60447 | 3696 | 3375 | 91.3149 | |
| gduggal-snapplat | SNP | tv | HG002complexvar | het | 96.9038 | 96.2928 | 97.5225 | 28.0304 | 145146 | 5588 | 145527 | 3697 | 526 | 14.2278 | |
| ciseli-custom | SNP | ti | map_l125_m2_e0 | * | 82.0578 | 78.1149 | 86.4200 | 77.2839 | 23636 | 6622 | 23616 | 3711 | 984 | 26.5158 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 73.8977 | 92.7678 | 61.4068 | 68.2562 | 5785 | 451 | 5919 | 3720 | 112 | 3.0108 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | het | 95.6776 | 99.2570 | 92.3473 | 78.4943 | 45022 | 337 | 45011 | 3730 | 265 | 7.1046 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | het | 73.7898 | 70.2842 | 77.6634 | 67.6709 | 12784 | 5405 | 12976 | 3732 | 123 | 3.2958 | |
| ciseli-custom | SNP | ti | map_l125_m2_e1 | * | 82.1337 | 78.2100 | 86.4719 | 77.2907 | 23908 | 6661 | 23887 | 3737 | 990 | 26.4918 | |
| gduggal-snapfb | INDEL | * | HG002compoundhet | het | 71.1390 | 60.5520 | 86.2126 | 38.8614 | 2479 | 1615 | 23405 | 3743 | 1778 | 47.5020 | |
| gduggal-snapplat | INDEL | D1_5 | HG002complexvar | * | 83.2560 | 78.3158 | 88.8615 | 63.4989 | 25621 | 7094 | 29885 | 3746 | 907 | 24.2125 | |
| gduggal-snapplat | INDEL | D1_5 | * | homalt | 88.9829 | 85.3881 | 92.8936 | 64.0746 | 41777 | 7149 | 49006 | 3749 | 2039 | 54.3878 | |
| eyeh-varpipe | INDEL | * | HG002complexvar | * | 93.6611 | 92.3263 | 95.0350 | 54.2841 | 71034 | 5904 | 71760 | 3749 | 3600 | 96.0256 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.9809 | 86.1182 | 87.8610 | 55.6334 | 27048 | 4360 | 27135 | 3749 | 3406 | 90.8509 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.9809 | 86.1182 | 87.8610 | 55.6334 | 27048 | 4360 | 27135 | 3749 | 3406 | 90.8509 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.1837 | 91.9278 | 48.1333 | 41.9722 | 3462 | 304 | 3481 | 3751 | 3650 | 97.3074 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.1837 | 91.9278 | 48.1333 | 41.9722 | 3462 | 304 | 3481 | 3751 | 3650 | 97.3074 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 29.4305 | 22.6149 | 42.1263 | 81.2487 | 2278 | 7795 | 2734 | 3756 | 1082 | 28.8072 | |
| eyeh-varpipe | INDEL | D6_15 | * | homalt | 70.9562 | 87.6541 | 59.6022 | 44.0635 | 5545 | 781 | 5543 | 3757 | 3655 | 97.2851 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | * | 97.0238 | 99.1147 | 95.0193 | 74.0812 | 71762 | 641 | 71751 | 3761 | 290 | 7.7107 | |
| eyeh-varpipe | INDEL | D6_15 | HG002compoundhet | * | 39.7758 | 35.3560 | 45.4585 | 32.6471 | 3193 | 5838 | 3138 | 3765 | 3754 | 99.7078 | |
| gduggal-snapvard | INDEL | C1_5 | * | het | 54.5455 | 100.0000 | 37.5000 | 88.8932 | 9 | 0 | 2265 | 3775 | 369 | 9.7748 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.9649 | 79.7856 | 88.6063 | 45.8996 | 25525 | 6467 | 29373 | 3777 | 2366 | 62.6423 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 71.6357 | 72.7045 | 70.5979 | 41.7864 | 7530 | 2827 | 9069 | 3777 | 3029 | 80.1959 | |
| jlack-gatk | SNP | * | map_l100_m2_e0 | het | 95.7132 | 99.2694 | 92.4029 | 79.6895 | 46060 | 339 | 46049 | 3786 | 266 | 7.0259 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 71.1247 | 96.9196 | 56.1741 | 75.2924 | 4688 | 149 | 4854 | 3787 | 159 | 4.1986 | |
| gduggal-bwafb | SNP | tv | * | het | 99.6077 | 99.8543 | 99.3624 | 27.5297 | 590842 | 862 | 590931 | 3792 | 213 | 5.6171 | |
| jlack-gatk | SNP | * | map_l100_m2_e1 | het | 95.7463 | 99.2772 | 92.4580 | 79.7064 | 46559 | 339 | 46548 | 3797 | 267 | 7.0319 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | het | 89.3113 | 96.7385 | 82.9433 | 83.9813 | 18686 | 630 | 18464 | 3797 | 256 | 6.7422 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 63.9682 | 59.1207 | 69.6815 | 44.3739 | 8741 | 6044 | 8729 | 3798 | 3701 | 97.4460 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.0688 | 96.6376 | 77.5838 | 51.2369 | 12100 | 421 | 13152 | 3800 | 3663 | 96.3947 | |
| mlin-fermikit | INDEL | * | * | homalt | 97.5803 | 98.1713 | 96.9963 | 56.8203 | 122883 | 2289 | 122774 | 3802 | 3715 | 97.7117 | |
| gduggal-snapfb | INDEL | * | HG002compoundhet | homalt | 22.9146 | 84.6939 | 13.2497 | 72.0594 | 581 | 105 | 581 | 3804 | 3669 | 96.4511 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.6587 | 97.5693 | 70.2096 | 85.8214 | 8911 | 222 | 8977 | 3809 | 26 | 0.6826 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.6587 | 97.5693 | 70.2096 | 85.8214 | 8911 | 222 | 8977 | 3809 | 26 | 0.6826 | |
| gduggal-snapfb | INDEL | D1_5 | * | het | 96.7358 | 97.4935 | 95.9898 | 56.7536 | 85379 | 2195 | 91342 | 3816 | 775 | 20.3092 | |
| jlack-gatk | SNP | * | map_l100_m2_e0 | * | 97.0473 | 99.1293 | 95.0510 | 75.5620 | 73320 | 644 | 73309 | 3817 | 291 | 7.6238 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 57.9782 | 64.4869 | 52.6629 | 39.1789 | 2495 | 1374 | 4252 | 3822 | 3071 | 80.3506 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.3950 | 71.2167 | 60.4531 | 49.7479 | 3986 | 1611 | 5844 | 3823 | 2953 | 77.2430 | |
| gduggal-snapvard | SNP | * | map_l150_m2_e0 | het | 89.6113 | 96.7913 | 83.4229 | 84.9670 | 19487 | 646 | 19254 | 3826 | 259 | 6.7695 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | * | 92.1558 | 96.2756 | 88.3741 | 81.2786 | 29469 | 1140 | 29091 | 3827 | 280 | 7.3164 | |
| jlack-gatk | SNP | * | map_l100_m2_e1 | * | 97.0682 | 99.1343 | 95.0864 | 75.5739 | 74090 | 647 | 74079 | 3828 | 292 | 7.6280 | |
| gduggal-snapvard | INDEL | C1_5 | * | * | 59.8991 | 90.0000 | 44.8865 | 88.9071 | 9 | 1 | 3125 | 3837 | 400 | 10.4248 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 74.4023 | 70.1058 | 79.2599 | 38.2733 | 14439 | 6157 | 14671 | 3839 | 3773 | 98.2808 | |
| gduggal-snapvard | SNP | * | map_l150_m2_e1 | het | 89.6801 | 96.8079 | 83.5299 | 85.0251 | 19713 | 650 | 19475 | 3840 | 262 | 6.8229 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 49.4570 | 43.9271 | 56.5797 | 43.4855 | 4868 | 6214 | 5009 | 3844 | 2967 | 77.1852 | |
| ciseli-custom | INDEL | I1_5 | HG002complexvar | * | 86.2012 | 84.5873 | 87.8779 | 52.9140 | 28220 | 5142 | 27874 | 3845 | 2974 | 77.3472 | |
| gduggal-snapvard | SNP | * | map_l150_m2_e0 | * | 92.3600 | 96.3299 | 88.7044 | 82.4713 | 30683 | 1169 | 30289 | 3857 | 284 | 7.3632 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | homalt | 11.1474 | 96.9072 | 5.9138 | 65.1721 | 282 | 9 | 243 | 3866 | 3861 | 99.8707 | |