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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64651-64700 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | * | map_l100_m1_e0 | homalt | 98.7765 | 98.6960 | 98.8571 | 82.9030 | 1211 | 16 | 1211 | 14 | 6 | 42.8571 | |
| jlack-gatk | INDEL | * | map_l100_m2_e0 | homalt | 98.7694 | 98.6519 | 98.8871 | 83.9295 | 1244 | 17 | 1244 | 14 | 6 | 42.8571 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | * | 92.6519 | 97.7324 | 88.0734 | 92.1312 | 862 | 20 | 864 | 117 | 6 | 5.1282 | |
| jlack-gatk | INDEL | * | map_l150_m1_e0 | het | 91.0230 | 98.0117 | 84.9647 | 93.0437 | 838 | 17 | 842 | 149 | 6 | 4.0269 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | het | 91.3052 | 98.1236 | 85.3728 | 93.4833 | 889 | 17 | 893 | 153 | 6 | 3.9216 | |
| jlack-gatk | INDEL | * | map_l150_m2_e1 | het | 91.3160 | 98.0519 | 85.4460 | 93.5089 | 906 | 18 | 910 | 155 | 6 | 3.8710 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.3413 | 97.5610 | 93.2203 | 88.0081 | 160 | 4 | 110 | 8 | 6 | 75.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | * | 83.3333 | 86.2069 | 80.6452 | 94.7428 | 75 | 12 | 75 | 18 | 6 | 33.3333 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | * | 83.8710 | 86.6667 | 81.2500 | 95.3033 | 78 | 12 | 78 | 18 | 6 | 33.3333 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | * | 84.4221 | 86.5979 | 82.3529 | 95.1126 | 84 | 13 | 84 | 18 | 6 | 33.3333 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6256 | 97.1429 | 98.1132 | 78.4302 | 374 | 11 | 364 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 93.4498 | 98.2619 | 89.0871 | 88.3254 | 848 | 15 | 849 | 104 | 6 | 5.7692 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 94.0601 | 98.8051 | 89.7500 | 89.3096 | 1075 | 13 | 1077 | 123 | 6 | 4.8781 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 94.2098 | 98.7752 | 90.0478 | 89.8856 | 1129 | 14 | 1131 | 125 | 6 | 4.8000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 94.2377 | 98.7900 | 90.0865 | 89.9406 | 1143 | 14 | 1145 | 126 | 6 | 4.7619 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.2010 | 96.9543 | 99.4801 | 27.1465 | 1146 | 36 | 1148 | 6 | 6 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.4996 | 92.1816 | 99.0654 | 24.7992 | 731 | 62 | 742 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3632 | 99.1908 | 99.5362 | 36.2528 | 1716 | 14 | 1717 | 8 | 6 | 75.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.7681 | 90.2913 | 95.3846 | 88.0074 | 186 | 20 | 186 | 9 | 6 | 66.6667 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.7193 | 100.0000 | 78.1250 | 91.6883 | 25 | 0 | 25 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2669 | 96.0317 | 98.5342 | 65.6983 | 605 | 25 | 605 | 9 | 6 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3594 | 99.1723 | 99.5472 | 71.1298 | 2636 | 22 | 2638 | 12 | 6 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | * | 96.8806 | 98.3570 | 95.4480 | 86.8027 | 1317 | 22 | 1321 | 63 | 6 | 9.5238 | |
| jlack-gatk | INDEL | I6_15 | * | hetalt | 94.0319 | 88.8083 | 99.9084 | 39.1561 | 7594 | 957 | 7635 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.7064 | 98.6111 | 96.8182 | 66.6667 | 213 | 3 | 213 | 7 | 6 | 85.7143 | |
| jlack-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8648 | 99.9188 | 30.3225 | 7384 | 10 | 7384 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | homalt | 98.6081 | 97.5009 | 99.7406 | 73.6452 | 2692 | 69 | 2692 | 7 | 6 | 85.7143 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8910 | 99.8415 | 99.9405 | 60.8743 | 10081 | 16 | 10081 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6673 | 99.4468 | 99.8889 | 71.7685 | 5393 | 30 | 5393 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6673 | 99.4468 | 99.8889 | 71.7685 | 5393 | 30 | 5393 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.0943 | 98.4288 | 99.7688 | 70.0054 | 3884 | 62 | 3884 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.1124 | 98.4570 | 99.7766 | 72.3207 | 4020 | 63 | 4020 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | homalt | 99.1112 | 98.4519 | 99.7794 | 72.2800 | 4070 | 64 | 4070 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | segdup | homalt | 99.8611 | 99.9074 | 99.8149 | 89.7982 | 3235 | 3 | 3235 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5407 | 96.4172 | 98.6907 | 74.9539 | 1211 | 45 | 1206 | 16 | 6 | 37.5000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.3074 | 94.9664 | 99.7667 | 39.5535 | 2547 | 135 | 2566 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.1996 | 94.1441 | 96.2791 | 59.2803 | 209 | 13 | 207 | 8 | 6 | 75.0000 | |
| jli-custom | INDEL | * | map_l100_m1_e0 | homalt | 99.1850 | 99.1850 | 99.1850 | 82.2765 | 1217 | 10 | 1217 | 10 | 6 | 60.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | homalt | 99.1284 | 99.2070 | 99.0499 | 83.3333 | 1251 | 10 | 1251 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | homalt | 99.1420 | 99.2194 | 99.0647 | 83.4066 | 1271 | 10 | 1271 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | * | 97.8989 | 97.7324 | 98.0660 | 88.3592 | 862 | 20 | 862 | 17 | 6 | 35.2941 | |
| jli-custom | INDEL | * | map_siren | het | 98.8982 | 98.5359 | 99.2631 | 80.2992 | 4442 | 66 | 4445 | 33 | 6 | 18.1818 | |
| jli-custom | INDEL | * | segdup | homalt | 99.4802 | 99.6875 | 99.2739 | 93.3014 | 957 | 3 | 957 | 7 | 6 | 85.7143 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 94.0000 | 100.0000 | 88.6792 | 36.1446 | 47 | 0 | 47 | 6 | 6 | 100.0000 | |
| cchapple-custom | INDEL | C1_5 | HG002compoundhet | het | 0.0000 | 0.0000 | 91.5709 | 83.0574 | 0 | 0 | 478 | 44 | 6 | 13.6364 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 86.6667 | 96.3066 | 0 | 0 | 104 | 16 | 6 | 37.5000 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 82.2222 | 96.5701 | 0 | 0 | 74 | 16 | 6 | 37.5000 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 86.6667 | 96.3066 | 0 | 0 | 104 | 16 | 6 | 37.5000 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 82.2222 | 96.5701 | 0 | 0 | 74 | 16 | 6 | 37.5000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.1323 | 99.5671 | 98.7013 | 53.8462 | 460 | 2 | 456 | 6 | 6 | 100.0000 | |