PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30301-30350 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9038 | 92.2764 | 97.6852 | 86.6419 | 227 | 19 | 211 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | I16_PLUS | segdup | homalt | 87.8049 | 100.0000 | 78.2609 | 90.9091 | 19 | 0 | 18 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l150_m0_e0 | * | 36.3636 | 25.0000 | 66.6667 | 96.8750 | 2 | 6 | 10 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l150_m2_e1 | het | 60.0000 | 56.2500 | 64.2857 | 95.4173 | 9 | 7 | 18 | 10 | 2 | 20.0000 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.0387 | 90.3226 | 82.1429 | 92.1875 | 112 | 12 | 115 | 25 | 5 | 20.0000 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.8561 | 97.7330 | 92.1437 | 91.1616 | 776 | 18 | 821 | 70 | 14 | 20.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.7555 | 99.7439 | 99.7671 | 54.1386 | 4284 | 11 | 4284 | 10 | 2 | 20.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.6837 | 99.7394 | 99.6281 | 54.8750 | 2679 | 7 | 2679 | 10 | 2 | 20.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.3435 | 99.1935 | 99.4939 | 70.5690 | 984 | 8 | 983 | 5 | 1 | 20.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8811 | 99.8613 | 99.9009 | 61.7921 | 10083 | 14 | 10083 | 10 | 2 | 20.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8009 | 99.9637 | 99.6386 | 38.4564 | 2757 | 1 | 2757 | 10 | 2 | 20.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m0_e0 | homalt | 33.3333 | 100.0000 | 20.0000 | 92.9178 | 5 | 0 | 5 | 20 | 4 | 20.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_l150_m2_e0 | * | 46.1771 | 32.9268 | 77.2727 | 96.4573 | 27 | 55 | 17 | 5 | 1 | 20.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_l150_m2_e0 | het | 45.7143 | 34.7826 | 66.6667 | 96.1340 | 16 | 30 | 10 | 5 | 1 | 20.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_l150_m2_e1 | * | 45.0221 | 31.7647 | 77.2727 | 96.4912 | 27 | 58 | 17 | 5 | 1 | 20.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_l150_m2_e1 | het | 45.0704 | 34.0426 | 66.6667 | 96.1637 | 16 | 31 | 10 | 5 | 1 | 20.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 27.8246 | 18.0645 | 60.5263 | 85.0394 | 28 | 127 | 23 | 15 | 3 | 20.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.3387 | 87.4046 | 97.8632 | 82.4456 | 458 | 66 | 458 | 10 | 2 | 20.0000 | |
| ghariani-varprowl | SNP | ti | tech_badpromoters | * | 96.5517 | 98.8235 | 94.3820 | 48.8506 | 84 | 1 | 84 | 5 | 1 | 20.0000 | |
| ghariani-varprowl | SNP | tv | map_l250_m1_e0 | homalt | 97.7435 | 96.1449 | 99.3961 | 88.8575 | 823 | 33 | 823 | 5 | 1 | 20.0000 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e0 | homalt | 97.8308 | 96.2647 | 99.4487 | 89.6177 | 902 | 35 | 902 | 5 | 1 | 20.0000 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e1 | homalt | 97.8518 | 96.3002 | 99.4541 | 89.6696 | 911 | 35 | 911 | 5 | 1 | 20.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6820 | 99.5032 | 99.8615 | 74.2124 | 3605 | 18 | 3605 | 5 | 1 | 20.0000 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e0 | * | 97.6365 | 96.7330 | 98.5570 | 88.7837 | 1362 | 46 | 1366 | 20 | 4 | 20.0000 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e1 | * | 97.5801 | 96.5949 | 98.5856 | 88.8230 | 1390 | 49 | 1394 | 20 | 4 | 20.0000 | |
| hfeng-pmm1 | INDEL | * | map_l250_m0_e0 | het | 91.5888 | 92.4528 | 90.7407 | 96.9849 | 49 | 4 | 49 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | SNP | tv | map_l100_m0_e0 | homalt | 97.1883 | 95.2678 | 99.1879 | 78.6252 | 3664 | 182 | 3664 | 30 | 6 | 20.0000 | |
| gduggal-snapplat | INDEL | * | segdup | hetalt | 55.6430 | 40.0000 | 91.3793 | 97.9993 | 52 | 78 | 53 | 5 | 1 | 20.0000 | |
| gduggal-snapplat | INDEL | D1_5 | tech_badpromoters | het | 51.9481 | 62.5000 | 44.4444 | 81.2500 | 5 | 3 | 4 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 67.1449 | 70.2703 | 64.2857 | 89.1892 | 26 | 11 | 18 | 10 | 2 | 20.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e0 | het | 89.9225 | 87.8788 | 92.0635 | 96.0427 | 58 | 8 | 58 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e1 | het | 89.9225 | 87.8788 | 92.0635 | 96.1632 | 58 | 8 | 58 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | SNP | * | func_cds | homalt | 99.9570 | 99.9857 | 99.9284 | 24.3691 | 6978 | 1 | 6978 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | SNP | * | tech_badpromoters | homalt | 96.9697 | 100.0000 | 94.1176 | 62.7193 | 80 | 0 | 80 | 5 | 1 | 20.0000 | |
| gduggal-snapvard | INDEL | * | map_l250_m0_e0 | * | 73.1479 | 91.0256 | 61.1399 | 97.2779 | 71 | 7 | 118 | 75 | 15 | 20.0000 | |
| gduggal-snapvard | INDEL | * | map_l250_m0_e0 | het | 67.2352 | 94.3396 | 52.2293 | 97.4169 | 50 | 3 | 82 | 75 | 15 | 20.0000 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 23.9130 | 83.8596 | 0 | 0 | 11 | 35 | 7 | 20.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 66.3233 | 60.7843 | 72.9730 | 93.0057 | 31 | 20 | 27 | 10 | 2 | 20.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m0_e0 | * | 77.9468 | 83.3333 | 73.2143 | 97.7734 | 20 | 4 | 41 | 15 | 3 | 20.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m0_e0 | het | 70.5302 | 86.6667 | 59.4595 | 98.2596 | 13 | 2 | 22 | 15 | 3 | 20.0000 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.2248 | 91.8756 | 81.2289 | 81.5160 | 8391 | 742 | 8646 | 1998 | 399 | 19.9700 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.2248 | 91.8756 | 81.2289 | 81.5160 | 8391 | 742 | 8646 | 1998 | 399 | 19.9700 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 38.4337 | 40.5674 | 36.5133 | 81.1880 | 572 | 838 | 865 | 1504 | 300 | 19.9468 | |
| dgrover-gatk | SNP | * | map_l150_m2_e0 | het | 98.9689 | 99.1805 | 98.7582 | 81.1353 | 19968 | 165 | 19962 | 251 | 50 | 19.9203 | |
| gduggal-snapvard | INDEL | * | map_l150_m0_e0 | het | 78.9308 | 95.6012 | 67.2109 | 93.3460 | 326 | 15 | 494 | 241 | 48 | 19.9170 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 36.3924 | 88.4798 | 0 | 0 | 115 | 201 | 40 | 19.9005 | |
| jpowers-varprowl | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.7965 | 98.7069 | 94.9587 | 77.6519 | 3206 | 42 | 3221 | 171 | 34 | 19.8830 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e0 | het | 92.5700 | 93.7629 | 91.4070 | 92.4193 | 1819 | 121 | 1819 | 171 | 34 | 19.8830 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m1_e0 | * | 85.3263 | 79.9784 | 91.4407 | 90.7363 | 1478 | 370 | 1720 | 161 | 32 | 19.8758 | |
| astatham-gatk | SNP | ti | * | het | 99.3889 | 98.8086 | 99.9762 | 18.5890 | 1266618 | 15273 | 1266563 | 302 | 60 | 19.8675 | |