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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9351-9400 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | * | map_l250_m1_e0 | * | 98.3858 | 98.7400 | 98.0341 | 88.9251 | 7131 | 91 | 7131 | 143 | 31 | 21.6783 | |
| gduggal-bwafb | SNP | ti | map_l125_m0_e0 | het | 98.2879 | 98.3057 | 98.2700 | 78.1213 | 8123 | 140 | 8123 | 143 | 44 | 30.7692 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | het | 84.7249 | 91.5509 | 78.8462 | 70.2988 | 1582 | 146 | 533 | 143 | 97 | 67.8322 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2698 | 98.4163 | 96.1497 | 78.7844 | 3853 | 62 | 3571 | 143 | 49 | 34.2657 | |
| eyeh-varpipe | SNP | ti | map_l150_m0_e0 | het | 98.2368 | 99.2937 | 97.2021 | 84.3948 | 5061 | 36 | 4968 | 143 | 4 | 2.7972 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e0 | het | 99.2723 | 99.4486 | 99.0966 | 70.7844 | 15690 | 87 | 15686 | 143 | 12 | 8.3916 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6591 | 99.7822 | 99.5363 | 71.5494 | 30694 | 67 | 30694 | 143 | 139 | 97.2028 | |
| jlack-gatk | SNP | * | HG002compoundhet | het | 99.3003 | 99.6050 | 98.9974 | 47.5779 | 14122 | 56 | 14120 | 143 | 30 | 20.9790 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.3300 | 94.5545 | 96.1183 | 76.3193 | 3820 | 220 | 3541 | 143 | 117 | 81.8182 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 20.1117 | 86.6018 | 0 | 0 | 36 | 143 | 8 | 5.5944 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2011 | 99.6842 | 98.7226 | 58.1229 | 11049 | 35 | 11052 | 143 | 20 | 13.9860 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 65.9794 | 77.7328 | 57.3134 | 76.8487 | 192 | 55 | 192 | 143 | 141 | 98.6014 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 59.1835 | 45.3355 | 85.2120 | 34.7503 | 277 | 334 | 824 | 143 | 142 | 99.3007 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m1_e0 | * | 91.7326 | 95.8640 | 87.9427 | 88.9869 | 1043 | 45 | 1043 | 143 | 27 | 18.8811 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5319 | 99.4945 | 99.5693 | 75.4597 | 33068 | 168 | 33062 | 143 | 107 | 74.8252 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6992 | 99.3022 | 98.1034 | 41.3093 | 7400 | 52 | 7397 | 143 | 1 | 0.6993 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2513 | 99.5095 | 97.0246 | 43.7566 | 4666 | 23 | 4663 | 143 | 1 | 0.6993 | |
| ckim-isaac | INDEL | I16_PLUS | HG002complexvar | * | 52.2963 | 39.2666 | 78.2675 | 62.9505 | 514 | 795 | 515 | 143 | 46 | 32.1678 | |
| dgrover-gatk | SNP | tv | map_l100_m1_e0 | het | 99.2944 | 99.5135 | 99.0763 | 71.7035 | 15342 | 75 | 15338 | 143 | 24 | 16.7832 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.2393 | 99.5982 | 94.9895 | 38.3851 | 2727 | 11 | 2711 | 143 | 53 | 37.0629 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002compoundhet | homalt | 25.1309 | 100.0000 | 14.3713 | 65.4244 | 24 | 0 | 24 | 143 | 143 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 80.9237 | 76.2066 | 86.2632 | 43.6078 | 900 | 281 | 898 | 143 | 143 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l100_m2_e1 | het | 99.1406 | 99.1781 | 99.1032 | 66.6722 | 15807 | 131 | 15803 | 143 | 59 | 41.2587 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e0 | * | 99.2122 | 99.2904 | 99.1340 | 71.8789 | 16372 | 117 | 16370 | 143 | 4 | 2.7972 | |
| qzeng-custom | SNP | tv | map_l250_m2_e0 | het | 78.8333 | 69.8969 | 90.3898 | 96.1692 | 1356 | 584 | 1345 | 143 | 116 | 81.1189 | |
| qzeng-custom | SNP | tv | map_l250_m2_e1 | het | 78.9288 | 69.9746 | 90.5109 | 96.1912 | 1375 | 590 | 1364 | 143 | 116 | 81.1189 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.4522 | 91.6512 | 93.2674 | 90.5520 | 1976 | 180 | 1981 | 143 | 93 | 65.0350 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002compoundhet | homalt | 7.6994 | 87.5000 | 4.0268 | 56.6860 | 7 | 1 | 6 | 143 | 142 | 99.3007 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.0065 | 98.3531 | 97.6623 | 53.6204 | 5972 | 100 | 5974 | 143 | 99 | 69.2308 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.6138 | 97.3501 | 83.0166 | 59.0666 | 698 | 19 | 699 | 143 | 81 | 56.6434 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.7409 | 93.7237 | 97.8469 | 79.8823 | 6451 | 432 | 6453 | 142 | 16 | 11.2676 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3740 | 98.0805 | 98.6692 | 39.1607 | 10526 | 206 | 10528 | 142 | 102 | 71.8310 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.7953 | 98.1565 | 99.4425 | 52.2443 | 2609 | 49 | 25329 | 142 | 36 | 25.3521 | |
| jmaeng-gatk | INDEL | D6_15 | * | homalt | 98.8031 | 99.8261 | 97.8008 | 55.3272 | 6315 | 11 | 6315 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6406 | 96.4859 | 98.8233 | 61.6023 | 12081 | 440 | 11926 | 142 | 130 | 91.5493 | |
| hfeng-pmm1 | INDEL | I1_5 | * | homalt | 99.7725 | 99.7799 | 99.7651 | 52.5960 | 60295 | 133 | 60299 | 142 | 137 | 96.4789 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0894 | 96.6856 | 99.5346 | 57.0832 | 30367 | 1041 | 30368 | 142 | 126 | 88.7324 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0894 | 96.6856 | 99.5346 | 57.0832 | 30367 | 1041 | 30368 | 142 | 126 | 88.7324 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.0428 | 95.6233 | 96.4659 | 70.2238 | 3889 | 178 | 3876 | 142 | 124 | 87.3239 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002complexvar | het | 67.4853 | 60.0723 | 76.9854 | 48.1513 | 665 | 442 | 475 | 142 | 141 | 99.2958 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 51.2934 | 59.7015 | 44.9612 | 67.1338 | 120 | 81 | 116 | 142 | 139 | 97.8873 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 46.3373 | 71.5686 | 34.2593 | 33.5385 | 73 | 29 | 74 | 142 | 132 | 92.9577 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 88.6180 | 82.8379 | 95.2651 | 48.0962 | 3205 | 664 | 2857 | 142 | 132 | 92.9577 | |
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | * | 98.0737 | 98.2808 | 97.8675 | 77.6619 | 6517 | 114 | 6517 | 142 | 29 | 20.4225 | |
| gduggal-bwafb | INDEL | D1_5 | HG002compoundhet | het | 94.6747 | 91.3773 | 98.2190 | 47.8412 | 1579 | 149 | 7831 | 142 | 74 | 52.1127 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 72.7559 | 58.4625 | 96.3002 | 76.5890 | 3696 | 2626 | 3696 | 142 | 55 | 38.7324 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 72.7559 | 58.4625 | 96.3002 | 76.5890 | 3696 | 2626 | 3696 | 142 | 55 | 38.7324 | |
| gduggal-bwaplat | SNP | ti | segdup | * | 98.6403 | 98.0243 | 99.2642 | 93.3166 | 19151 | 386 | 19157 | 142 | 9 | 6.3380 | |