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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75851-75900 / 86044 show all | |||||||||||||||
| jli-custom | SNP | * | map_l150_m2_e1 | het | 98.8617 | 98.5267 | 99.1989 | 74.7124 | 20063 | 300 | 20060 | 162 | 49 | 30.2469 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 50.2457 | 51.5789 | 48.9796 | 83.9344 | 49 | 46 | 48 | 50 | 49 | 98.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 75.3120 | 84.4262 | 67.9739 | 56.5341 | 103 | 19 | 104 | 49 | 49 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0321 | 95.0607 | 99.0869 | 48.8550 | 5639 | 293 | 5643 | 52 | 49 | 94.2308 | |
| rpoplin-dv42 | SNP | tv | map_l150_m1_e0 | het | 98.7411 | 98.8195 | 98.6628 | 73.7814 | 6864 | 82 | 6862 | 93 | 49 | 52.6882 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e0 | het | 98.7872 | 98.8555 | 98.7190 | 75.1931 | 7169 | 83 | 7167 | 93 | 49 | 52.6882 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e1 | het | 98.8030 | 98.8704 | 98.7357 | 75.2106 | 7265 | 83 | 7263 | 93 | 49 | 52.6882 | |
| rpoplin-dv42 | INDEL | * | map_siren | * | 98.4035 | 98.0972 | 98.7117 | 97.1910 | 7269 | 141 | 7279 | 95 | 49 | 51.5789 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6340 | 97.1321 | 98.1411 | 72.4105 | 5927 | 175 | 5913 | 112 | 49 | 43.7500 | |
| ndellapenna-hhga | SNP | * | map_l125_m1_e0 | * | 99.1686 | 98.5527 | 99.7922 | 67.5463 | 44671 | 656 | 44671 | 93 | 49 | 52.6882 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e0 | * | 99.1850 | 98.5896 | 99.7877 | 69.4898 | 46064 | 659 | 46064 | 98 | 49 | 50.0000 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e1 | * | 99.1837 | 98.5869 | 99.7877 | 69.5422 | 46535 | 667 | 46535 | 99 | 49 | 49.4949 | |
| ndellapenna-hhga | SNP | ti | HG002complexvar | het | 99.7687 | 99.5752 | 99.9630 | 16.8677 | 313429 | 1337 | 313430 | 116 | 49 | 42.2414 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7947 | 99.0383 | 98.5524 | 55.6705 | 16271 | 158 | 31384 | 461 | 49 | 10.6291 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 88.9612 | 90.4472 | 87.5233 | 61.4224 | 445 | 47 | 470 | 67 | 49 | 73.1343 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 92.8302 | 90.7619 | 94.9950 | 53.7071 | 953 | 97 | 949 | 50 | 49 | 98.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5976 | 99.8224 | 97.4026 | 57.6846 | 2248 | 4 | 2250 | 60 | 49 | 81.6667 | |
| mlin-fermikit | SNP | tv | segdup | homalt | 98.3960 | 98.5485 | 98.2440 | 87.6277 | 3191 | 47 | 3189 | 57 | 49 | 85.9649 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.5228 | 95.7439 | 99.3691 | 35.4149 | 7716 | 343 | 7718 | 49 | 49 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.5228 | 95.7439 | 99.3691 | 35.4149 | 7716 | 343 | 7718 | 49 | 49 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | homalt | 98.7906 | 98.4933 | 99.0897 | 41.6927 | 6145 | 94 | 6096 | 56 | 49 | 87.5000 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002compoundhet | homalt | 53.2110 | 93.5484 | 37.1795 | 63.3803 | 29 | 2 | 29 | 49 | 49 | 100.0000 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9150 | 98.5617 | 95.3224 | 87.1181 | 6784 | 99 | 6888 | 338 | 49 | 14.4970 | |
| ltrigg-rtg2 | SNP | ti | HG002complexvar | homalt | 99.9240 | 99.8739 | 99.9741 | 18.1301 | 193219 | 244 | 193117 | 50 | 49 | 98.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.1790 | 86.6893 | 98.4109 | 40.6421 | 3315 | 509 | 3530 | 57 | 49 | 85.9649 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | * | 98.3311 | 97.7254 | 98.9445 | 57.6259 | 4683 | 109 | 4687 | 50 | 49 | 98.0000 | |
| bgallagher-sentieon | SNP | * | map_l100_m0_e0 | het | 98.8545 | 99.3162 | 98.3971 | 73.2385 | 21060 | 145 | 21056 | 343 | 49 | 14.2857 | |
| bgallagher-sentieon | SNP | * | map_l150_m1_e0 | het | 98.7760 | 99.2493 | 98.3073 | 78.6499 | 19171 | 145 | 19165 | 330 | 49 | 14.8485 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.8715 | 98.1383 | 99.6157 | 72.7478 | 15287 | 290 | 15293 | 59 | 49 | 83.0508 | |
| astatham-gatk | INDEL | I6_15 | HG002compoundhet | het | 85.7861 | 97.5962 | 76.5258 | 84.3382 | 203 | 5 | 163 | 50 | 49 | 98.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 84.0047 | 86.8966 | 81.2992 | 66.0428 | 378 | 57 | 413 | 95 | 49 | 51.5789 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 30.6011 | 28.0000 | 33.7349 | 46.7949 | 21 | 54 | 28 | 55 | 49 | 89.0909 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6272 | 95.0801 | 96.1806 | 60.9315 | 1662 | 86 | 1662 | 66 | 49 | 74.2424 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.3590 | 97.3698 | 97.3483 | 58.9147 | 3776 | 102 | 3818 | 104 | 49 | 47.1154 | |
| anovak-vg | SNP | ti | func_cds | het | 98.3229 | 97.6129 | 99.0434 | 32.3272 | 8301 | 203 | 8283 | 80 | 49 | 61.2500 | |
| anovak-vg | SNP | ti | map_l125_m1_e0 | homalt | 89.7681 | 81.8379 | 99.4000 | 64.4522 | 9039 | 2006 | 8946 | 54 | 49 | 90.7407 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.2061 | 97.3623 | 97.0504 | 40.0412 | 3359 | 91 | 3389 | 103 | 49 | 47.5728 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5288 | 99.4462 | 99.6115 | 59.5139 | 19752 | 110 | 19745 | 77 | 49 | 63.6364 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | * | 95.9812 | 96.4527 | 95.5142 | 84.7037 | 3562 | 131 | 3641 | 171 | 49 | 28.6550 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2264 | 95.2551 | 99.2811 | 61.5901 | 8010 | 399 | 8010 | 58 | 49 | 84.4828 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3551 | 95.7767 | 98.9864 | 63.1106 | 6055 | 267 | 6055 | 62 | 49 | 79.0323 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3551 | 95.7767 | 98.9864 | 63.1106 | 6055 | 267 | 6055 | 62 | 49 | 79.0323 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 34.7826 | 48.7805 | 27.0270 | 82.1256 | 20 | 21 | 20 | 54 | 49 | 90.7407 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8911 | 98.2843 | 86.2787 | 74.9189 | 1203 | 21 | 1201 | 191 | 49 | 25.6545 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1377 | 92.8872 | 99.6239 | 30.9811 | 12785 | 979 | 12979 | 49 | 49 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1413 | 92.8877 | 99.6311 | 33.7242 | 13034 | 998 | 13234 | 49 | 49 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.2111 | 96.5725 | 97.8583 | 68.9818 | 2564 | 91 | 2513 | 55 | 49 | 89.0909 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.5724 | 99.2360 | 95.9638 | 73.1297 | 1169 | 9 | 1165 | 49 | 49 | 100.0000 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9719 | 99.1684 | 98.7761 | 70.4653 | 30884 | 259 | 31073 | 385 | 49 | 12.7273 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9719 | 99.1684 | 98.7761 | 70.4653 | 30884 | 259 | 31073 | 385 | 49 | 12.7273 | |