PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72751-72800 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | tv | map_l100_m2_e0 | het | 99.5338 | 99.4803 | 99.5875 | 67.0941 | 15695 | 82 | 15691 | 65 | 5 | 7.6923 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002compoundhet | * | 95.1177 | 93.2080 | 97.1073 | 33.8339 | 2182 | 159 | 2182 | 65 | 63 | 96.9231 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 96.8390 | 98.3187 | 95.4031 | 87.7576 | 1345 | 23 | 1349 | 65 | 7 | 10.7692 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 96.8991 | 98.3513 | 95.4892 | 87.8016 | 1372 | 23 | 1376 | 65 | 7 | 10.7692 | |
| hfeng-pmm1 | SNP | ti | HG002complexvar | * | 99.8935 | 99.8000 | 99.9872 | 17.3497 | 507419 | 1017 | 507360 | 65 | 31 | 47.6923 | |
| hfeng-pmm1 | SNP | ti | map_l100_m0_e0 | het | 99.2035 | 98.8772 | 99.5320 | 69.1542 | 13826 | 157 | 13823 | 65 | 16 | 24.6154 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | het | 99.0951 | 98.7227 | 99.4704 | 74.9167 | 12212 | 158 | 12208 | 65 | 17 | 26.1538 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7674 | 88.8428 | 97.0548 | 55.8776 | 2142 | 269 | 2142 | 65 | 63 | 96.9231 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.2981 | 93.8152 | 98.9159 | 60.6845 | 5931 | 391 | 5931 | 65 | 56 | 86.1538 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.2981 | 93.8152 | 98.9159 | 60.6845 | 5931 | 391 | 5931 | 65 | 56 | 86.1538 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002compoundhet | homalt | 48.8189 | 100.0000 | 32.2917 | 75.1295 | 31 | 0 | 31 | 65 | 65 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | het | 97.9824 | 98.2413 | 97.7249 | 78.7694 | 2793 | 50 | 2792 | 65 | 38 | 58.4615 | |
| rpoplin-dv42 | SNP | ti | map_l150_m0_e0 | het | 98.4858 | 98.2735 | 98.6990 | 79.8611 | 5009 | 88 | 5007 | 66 | 44 | 66.6667 | |
| mlin-fermikit | INDEL | I16_PLUS | HG002compoundhet | homalt | 8.3333 | 100.0000 | 4.3478 | 68.0556 | 3 | 0 | 3 | 66 | 66 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l125_m0_e0 | het | 49.1614 | 32.7622 | 98.4323 | 62.8190 | 4149 | 8515 | 4144 | 66 | 3 | 4.5455 | |
| ltrigg-rtg2 | INDEL | D1_5 | * | hetalt | 97.9310 | 96.5544 | 99.3475 | 70.1886 | 9892 | 353 | 10049 | 66 | 65 | 98.4848 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1160 | 95.4815 | 98.8074 | 51.9618 | 5473 | 259 | 5468 | 66 | 42 | 63.6364 | |
| ndellapenna-hhga | SNP | * | map_l150_m1_e0 | het | 98.6191 | 97.6082 | 99.6512 | 73.3059 | 18854 | 462 | 18854 | 66 | 30 | 45.4545 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.7617 | 87.5000 | 90.0602 | 60.8952 | 252 | 36 | 598 | 66 | 60 | 90.9091 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m1_e0 | het | 80.8356 | 71.8147 | 92.4485 | 89.2761 | 558 | 219 | 808 | 66 | 13 | 19.6970 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.6640 | 97.7823 | 93.6355 | 79.8288 | 970 | 22 | 971 | 66 | 9 | 13.6364 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0655 | 98.4745 | 99.6636 | 56.9081 | 19559 | 303 | 19552 | 66 | 47 | 71.2121 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 87.3821 | 92.4855 | 82.8125 | 68.7551 | 320 | 26 | 318 | 66 | 63 | 95.4545 | |
| jmaeng-gatk | SNP | ti | map_l250_m2_e1 | * | 71.3857 | 56.2254 | 97.7397 | 96.1904 | 2854 | 2222 | 2854 | 66 | 8 | 12.1212 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.6206 | 97.5940 | 88.1295 | 86.9820 | 649 | 16 | 490 | 66 | 61 | 92.4242 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002compoundhet | * | 84.3510 | 75.2217 | 96.0024 | 42.9312 | 1612 | 531 | 1585 | 66 | 64 | 96.9697 | |
| jmaeng-gatk | SNP | ti | map_l250_m2_e1 | het | 74.6274 | 60.7154 | 96.8101 | 96.8027 | 2003 | 1296 | 2003 | 66 | 8 | 12.1212 | |
| bgallagher-sentieon | SNP | tv | segdup | het | 99.2561 | 99.7541 | 98.7631 | 92.1695 | 5274 | 13 | 5270 | 66 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0075 | 95.3292 | 98.7460 | 27.5468 | 5184 | 254 | 5197 | 66 | 64 | 96.9697 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.3360 | 76.6141 | 88.9816 | 53.1299 | 534 | 163 | 533 | 66 | 65 | 98.4848 | |
| 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 | * | map_l150_m1_e0 | homalt | 87.8735 | 78.8344 | 99.2540 | 70.4677 | 8887 | 2386 | 8781 | 66 | 54 | 81.8182 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 61.5814 | 69.3069 | 55.4054 | 91.6337 | 70 | 31 | 82 | 66 | 26 | 39.3939 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 55.0270 | 47.1042 | 66.1538 | 55.0691 | 122 | 137 | 129 | 66 | 54 | 81.8182 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 8.0617 | 4.6278 | 31.2500 | 60.9756 | 23 | 474 | 30 | 66 | 20 | 30.3030 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4435 | 99.1224 | 99.7666 | 66.9356 | 28012 | 248 | 28207 | 66 | 17 | 25.7576 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 65.6250 | 0 | 0 | 0 | 66 | 0 | 0.0000 | ||
| eyeh-varpipe | SNP | * | map_l250_m0_e0 | * | 98.0582 | 99.2506 | 96.8941 | 94.2786 | 2119 | 16 | 2059 | 66 | 4 | 6.0606 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e0 | het | 98.6087 | 99.2624 | 97.9636 | 91.2085 | 3230 | 24 | 3175 | 66 | 4 | 6.0606 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 91.9498 | 85.6224 | 99.2869 | 60.0604 | 9189 | 1543 | 9190 | 66 | 25 | 37.8788 | |
| gduggal-bwafb | INDEL | I1_5 | HG002compoundhet | hetalt | 91.0057 | 84.5844 | 98.4821 | 73.0807 | 9454 | 1723 | 4282 | 66 | 66 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.2328 | 95.1446 | 99.4146 | 48.4901 | 921 | 47 | 11209 | 66 | 66 | 100.0000 | |
| gduggal-bwavard | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 13.1579 | 95.1929 | 0 | 0 | 10 | 66 | 6 | 9.0909 | |
| gduggal-bwavard | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 13.1579 | 95.1929 | 0 | 0 | 10 | 66 | 6 | 9.0909 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | het | 65.0768 | 88.4615 | 51.4706 | 92.9130 | 69 | 9 | 70 | 66 | 34 | 51.5152 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.5575 | 98.0766 | 99.0431 | 61.4154 | 6884 | 135 | 6831 | 66 | 45 | 68.1818 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.7286 | 97.2989 | 96.1650 | 69.1079 | 1657 | 46 | 1655 | 66 | 14 | 21.2121 | |
| egarrison-hhga | SNP | * | map_l100_m0_e0 | * | 99.3454 | 98.8977 | 99.7972 | 67.0353 | 32479 | 362 | 32480 | 66 | 33 | 50.0000 | |
| egarrison-hhga | SNP | tv | HG002complexvar | het | 99.7360 | 99.5170 | 99.9560 | 21.2359 | 150003 | 728 | 150023 | 66 | 28 | 42.4242 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | homalt | 84.4830 | 77.2455 | 93.2169 | 48.7355 | 903 | 266 | 907 | 66 | 15 | 22.7273 | |