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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77501-77550 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | ti | map_l150_m2_e1 | * | 98.7513 | 98.6488 | 98.8540 | 78.0171 | 20443 | 280 | 20443 | 237 | 70 | 29.5359 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e0 | het | 90.4577 | 98.4184 | 83.6884 | 91.8376 | 1369 | 22 | 1375 | 268 | 70 | 26.1194 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.6230 | 99.7947 | 86.4130 | 66.7870 | 486 | 1 | 477 | 75 | 70 | 93.3333 | |
| gduggal-bwavard | SNP | * | map_l150_m0_e0 | * | 92.1711 | 97.2989 | 87.5568 | 86.0626 | 11707 | 325 | 11568 | 1644 | 70 | 4.2579 | |
| gduggal-bwavard | SNP | * | segdup | * | 98.3638 | 97.5737 | 99.1668 | 93.3246 | 27386 | 681 | 27135 | 228 | 70 | 30.7018 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.2502 | 89.3757 | 77.9104 | 89.9920 | 816 | 97 | 783 | 222 | 70 | 31.5315 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 91.6227 | 96.5092 | 87.2072 | 59.1912 | 470 | 17 | 484 | 71 | 70 | 98.5915 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.8760 | 89.1186 | 99.1699 | 39.2139 | 3448 | 421 | 9677 | 81 | 70 | 86.4198 | |
| gduggal-bwafb | SNP | * | map_l125_m0_e0 | het | 98.0108 | 98.2391 | 97.7835 | 78.4484 | 12441 | 223 | 12441 | 282 | 70 | 24.8227 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.4592 | 94.7518 | 94.1685 | 74.3063 | 1336 | 74 | 1308 | 81 | 70 | 86.4198 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 60.3960 | 85.9155 | 46.5649 | 47.8088 | 61 | 10 | 61 | 70 | 70 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.3376 | 93.0985 | 97.6870 | 52.9536 | 3251 | 241 | 3252 | 77 | 70 | 90.9091 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | * | 97.4049 | 96.6244 | 98.1982 | 67.4168 | 6555 | 229 | 6540 | 120 | 70 | 58.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.6684 | 95.5791 | 97.7828 | 72.0972 | 4778 | 221 | 4763 | 108 | 70 | 64.8148 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.6684 | 95.5791 | 97.7828 | 72.0972 | 4778 | 221 | 4763 | 108 | 70 | 64.8148 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5102 | 97.4083 | 99.6374 | 38.9351 | 23904 | 636 | 23906 | 87 | 70 | 80.4598 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e0 | * | 99.1468 | 99.0175 | 99.2763 | 70.8786 | 16327 | 162 | 16325 | 119 | 70 | 58.8235 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | * | 99.1554 | 99.0274 | 99.2837 | 70.9387 | 16495 | 162 | 16493 | 119 | 70 | 58.8235 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.1465 | 92.0399 | 98.4702 | 62.7698 | 4891 | 423 | 4892 | 76 | 70 | 92.1053 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e1 | * | 98.3291 | 97.9967 | 98.6638 | 88.0879 | 7827 | 160 | 7827 | 106 | 70 | 66.0377 | |
| rpoplin-dv42 | SNP | ti | map_l125_m0_e0 | * | 98.9475 | 98.7149 | 99.1811 | 72.7585 | 12598 | 164 | 12596 | 104 | 70 | 67.3077 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e0 | * | 90.3981 | 94.5158 | 86.6242 | 88.6067 | 810 | 47 | 1088 | 168 | 70 | 41.6667 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.4470 | 65.9048 | 88.2202 | 66.0139 | 692 | 358 | 689 | 92 | 70 | 76.0870 | |
| ghariani-varprowl | SNP | * | segdup | * | 97.8779 | 99.6437 | 96.1737 | 92.2561 | 27967 | 100 | 27975 | 1113 | 70 | 6.2893 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.0963 | 99.8550 | 96.3986 | 45.7203 | 2754 | 4 | 2757 | 103 | 70 | 67.9612 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | homalt | 99.7782 | 99.8372 | 99.7192 | 55.9241 | 26983 | 44 | 26991 | 76 | 70 | 92.1053 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 43.4048 | 30.1435 | 77.5000 | 51.4416 | 252 | 584 | 248 | 72 | 70 | 97.2222 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e0 | het | 85.9616 | 81.9072 | 90.4382 | 95.1114 | 1589 | 351 | 1589 | 168 | 70 | 41.6667 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e1 | het | 86.0422 | 82.0356 | 90.4602 | 95.1420 | 1612 | 353 | 1612 | 170 | 70 | 41.1765 | |
| gduggal-snapvard | INDEL | C6_15 | HG002compoundhet | het | 0.0000 | 0.0000 | 25.8760 | 72.2513 | 0 | 0 | 96 | 275 | 70 | 25.4545 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 12.8457 | 8.1136 | 30.8219 | 63.7717 | 40 | 453 | 45 | 101 | 70 | 69.3069 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 19.4706 | 14.4444 | 29.8611 | 63.4518 | 39 | 231 | 43 | 101 | 70 | 69.3069 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 2.8165 | 1.5003 | 22.9630 | 60.5263 | 29 | 1904 | 31 | 104 | 70 | 67.3077 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 3.8186 | 2.0873 | 22.3881 | 59.7598 | 11 | 516 | 30 | 104 | 70 | 67.3077 | |
| anovak-vg | SNP | * | func_cds | het | 98.2393 | 97.5540 | 98.9342 | 34.7247 | 10888 | 273 | 10861 | 117 | 70 | 59.8291 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.5260 | 93.1770 | 84.3173 | 80.1174 | 437 | 32 | 457 | 85 | 70 | 82.3529 | |
| astatham-gatk | INDEL | D16_PLUS | * | het | 97.7337 | 99.3036 | 96.2126 | 78.4600 | 3137 | 22 | 2896 | 114 | 70 | 61.4035 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.3699 | 99.0104 | 93.8665 | 85.7412 | 1801 | 18 | 1561 | 102 | 70 | 68.6275 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.3699 | 99.0104 | 93.8665 | 85.7412 | 1801 | 18 | 1561 | 102 | 70 | 68.6275 | |
| astatham-gatk | INDEL | I1_5 | HG002compoundhet | het | 94.9597 | 98.5882 | 91.5888 | 86.4942 | 838 | 12 | 784 | 72 | 70 | 97.2222 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.3802 | 99.4681 | 93.4783 | 60.2735 | 561 | 3 | 1032 | 72 | 70 | 97.2222 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.0253 | 80.8399 | 83.2461 | 66.0293 | 616 | 146 | 636 | 128 | 70 | 54.6875 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.9887 | 87.7705 | 88.2080 | 78.0159 | 933 | 130 | 950 | 127 | 70 | 55.1181 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | het | 82.1373 | 88.5714 | 76.5746 | 87.9814 | 682 | 88 | 693 | 212 | 70 | 33.0189 | |
| bgallagher-sentieon | SNP | * | map_l125_m1_e0 | * | 99.2644 | 99.4418 | 99.0876 | 71.3529 | 45074 | 253 | 45068 | 415 | 70 | 16.8675 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | * | 99.2735 | 99.4499 | 99.0978 | 72.9518 | 46466 | 257 | 46460 | 423 | 70 | 16.5485 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | * | 99.2798 | 99.4555 | 99.1048 | 72.9953 | 46945 | 257 | 46939 | 424 | 70 | 16.5094 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.3991 | 97.0540 | 88.1703 | 71.9469 | 593 | 18 | 559 | 75 | 71 | 94.6667 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 46.3519 | 40.9091 | 53.4653 | 59.0264 | 99 | 143 | 108 | 94 | 71 | 75.5319 | |