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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24751-24800 / 86044 show all | |||||||||||||||
| jli-custom | SNP | * | map_l150_m2_e0 | homalt | 99.7002 | 99.4871 | 99.9142 | 70.0015 | 11639 | 60 | 11639 | 10 | 10 | 100.0000 | |
| jli-custom | SNP | * | map_l150_m2_e1 | homalt | 99.7034 | 99.4927 | 99.9151 | 70.0155 | 11767 | 60 | 11767 | 10 | 10 | 100.0000 | |
| jli-custom | SNP | * | segdup | homalt | 99.9023 | 99.8976 | 99.9069 | 88.0536 | 10732 | 11 | 10732 | 10 | 10 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7091 | 99.9470 | 99.4723 | 72.7691 | 1885 | 1 | 1885 | 10 | 8 | 80.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6443 | 99.5626 | 99.7262 | 54.5715 | 3642 | 16 | 3642 | 10 | 5 | 50.0000 | |
| jmaeng-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.3350 | 98.6248 | 98.0469 | 84.7483 | 502 | 7 | 502 | 10 | 5 | 50.0000 | |
| jmaeng-gatk | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6806 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.9768 | 87.2358 | 99.5265 | 30.0431 | 2064 | 302 | 2102 | 10 | 10 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | segdup | * | 95.0392 | 95.2880 | 94.7917 | 95.0541 | 182 | 9 | 182 | 10 | 4 | 40.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002complexvar | * | 98.2253 | 97.2498 | 99.2206 | 67.1110 | 1273 | 36 | 1273 | 10 | 9 | 90.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.9225 | 92.5121 | 97.4619 | 73.8553 | 383 | 31 | 384 | 10 | 8 | 80.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4634 | 89.3657 | 97.9550 | 62.9826 | 479 | 57 | 479 | 10 | 9 | 90.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4582 | 99.2565 | 99.6607 | 48.9520 | 2937 | 22 | 2937 | 10 | 1 | 10.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2061 | 98.9623 | 99.4512 | 52.1534 | 1812 | 19 | 1812 | 10 | 1 | 10.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m1_e0 | het | 96.1010 | 93.1835 | 99.2070 | 77.7758 | 1244 | 91 | 1251 | 10 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e0 | het | 96.2239 | 93.3861 | 99.2395 | 79.6156 | 1299 | 92 | 1305 | 10 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 77.2727 | 93.3735 | 0 | 1 | 34 | 10 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.9969 | 94.8995 | 99.1890 | 42.3293 | 1228 | 66 | 1223 | 10 | 10 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.7077 | 96.0166 | 99.4595 | 54.9659 | 1856 | 77 | 1840 | 10 | 10 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7707 | 96.6667 | 96.8750 | 65.8120 | 319 | 11 | 310 | 10 | 3 | 30.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.5059 | 95.7223 | 99.3573 | 64.9865 | 1544 | 69 | 1546 | 10 | 1 | 10.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m2_e1 | * | 97.8909 | 96.5591 | 99.2598 | 80.3577 | 1347 | 48 | 1341 | 10 | 3 | 30.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | het | 94.6384 | 94.2308 | 95.0495 | 73.6292 | 196 | 12 | 192 | 10 | 6 | 60.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8016 | 99.6534 | 99.9503 | 52.1900 | 20129 | 70 | 20107 | 10 | 3 | 30.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.5263 | 90.1554 | 97.1591 | 89.2157 | 348 | 38 | 342 | 10 | 1 | 10.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.2553 | 90.5797 | 96.0938 | 89.2437 | 250 | 26 | 246 | 10 | 1 | 10.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8164 | 99.6914 | 99.9417 | 52.6220 | 17124 | 53 | 17138 | 10 | 7 | 70.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7742 | 99.6391 | 99.9096 | 52.3779 | 11044 | 40 | 11055 | 10 | 7 | 70.0000 | |
| ltrigg-rtg1 | SNP | * | map_l125_m0_e0 | homalt | 99.7091 | 99.5679 | 99.8506 | 69.2643 | 6683 | 29 | 6683 | 10 | 10 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | * | hetalt | 99.0637 | 99.8282 | 98.3108 | 41.4441 | 581 | 1 | 582 | 10 | 10 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5615 | 99.2123 | 99.9132 | 66.4238 | 11461 | 91 | 11511 | 10 | 8 | 80.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.3467 | 97.5309 | 99.1763 | 83.8090 | 1264 | 32 | 1204 | 10 | 1 | 10.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.6187 | 98.4724 | 98.7654 | 85.1838 | 838 | 13 | 800 | 10 | 1 | 10.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5615 | 99.2123 | 99.9132 | 66.4238 | 11461 | 91 | 11511 | 10 | 8 | 80.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.4211 | 99.0527 | 99.7923 | 61.9326 | 4810 | 46 | 4804 | 10 | 2 | 20.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4045 | 98.9789 | 99.8338 | 50.4652 | 6010 | 62 | 6006 | 10 | 5 | 50.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4778 | 99.2346 | 99.7223 | 46.3498 | 3630 | 28 | 3591 | 10 | 1 | 10.0000 | |
| ltrigg-rtg2 | INDEL | * | map_siren | homalt | 98.9758 | 98.3427 | 99.6172 | 74.6678 | 2611 | 44 | 2602 | 10 | 7 | 70.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | * | * | 98.7212 | 100.0000 | 97.4747 | 93.7931 | 7 | 0 | 386 | 10 | 3 | 30.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.1948 | 98.5039 | 99.8954 | 68.1029 | 9547 | 145 | 9547 | 10 | 9 | 90.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5556 | 99.1696 | 99.9446 | 40.0259 | 18032 | 151 | 18029 | 10 | 2 | 20.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3358 | 98.7667 | 99.9115 | 42.6185 | 11292 | 141 | 11289 | 10 | 2 | 20.0000 | |
| astatham-gatk | SNP | * | map_l150_m0_e0 | homalt | 98.8775 | 98.0191 | 99.7511 | 73.7506 | 4008 | 81 | 4008 | 10 | 9 | 90.0000 | |
| astatham-gatk | SNP | * | segdup | homalt | 99.8696 | 99.8324 | 99.9068 | 88.1147 | 10725 | 18 | 10725 | 10 | 10 | 100.0000 | |
| astatham-gatk | SNP | tv | map_l100_m1_e0 | homalt | 99.5729 | 99.2591 | 99.8887 | 59.2933 | 8976 | 67 | 8976 | 10 | 6 | 60.0000 | |
| astatham-gatk | SNP | tv | map_l100_m2_e0 | homalt | 99.5809 | 99.2728 | 99.8908 | 61.7518 | 9147 | 67 | 9147 | 10 | 6 | 60.0000 | |
| astatham-gatk | SNP | tv | map_l100_m2_e1 | homalt | 99.5848 | 99.2797 | 99.8918 | 61.7406 | 9235 | 67 | 9235 | 10 | 6 | 60.0000 | |
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 91.8699 | 0 | 0 | 0 | 10 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 0.0000 | 0.0000 | 60.0000 | 0 | 0 | 0 | 10 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 77.7778 | 0 | 0 | 0 | 10 | 0 | 0.0000 | ||