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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3251-3300 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D6_15 | * | het | 91.7291 | 91.4941 | 91.9653 | 44.9050 | 10606 | 986 | 10084 | 881 | 656 | 74.4608 | |
| astatham-gatk | INDEL | * | HG002compoundhet | homalt | 60.8541 | 99.7085 | 43.7900 | 84.6320 | 684 | 2 | 684 | 878 | 876 | 99.7722 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e1 | het | 96.7434 | 96.4676 | 97.0208 | 79.0695 | 28593 | 1047 | 28593 | 878 | 245 | 27.9043 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 43.1783 | 40.0414 | 46.8485 | 64.6530 | 774 | 1159 | 773 | 877 | 864 | 98.5177 | |
| eyeh-varpipe | SNP | ti | map_siren | het | 99.1597 | 99.7515 | 98.5748 | 60.2517 | 62227 | 155 | 60657 | 877 | 34 | 3.8769 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.8636 | 96.4960 | 97.2340 | 52.6642 | 30871 | 1121 | 30794 | 876 | 794 | 90.6393 | |
| gduggal-snapvard | SNP | * | map_l250_m0_e0 | het | 74.0125 | 93.3599 | 61.3074 | 94.5783 | 1406 | 100 | 1388 | 876 | 18 | 2.0548 | |
| cchapple-custom | SNP | tv | map_l100_m1_e0 | * | 97.1628 | 97.8613 | 96.4743 | 69.7586 | 23977 | 524 | 23970 | 876 | 133 | 15.1826 | |
| cchapple-custom | SNP | tv | map_l100_m1_e0 | het | 96.2530 | 98.0346 | 94.5349 | 73.9009 | 15114 | 303 | 15153 | 876 | 133 | 15.1826 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 93.3626 | 97.9878 | 89.1544 | 38.6200 | 7207 | 148 | 7201 | 876 | 61 | 6.9635 | |
| ckim-gatk | SNP | ti | map_siren | * | 94.6168 | 90.5675 | 99.0452 | 64.7326 | 90889 | 9466 | 90874 | 876 | 96 | 10.9589 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7997 | 94.0020 | 97.6675 | 65.5892 | 5736 | 366 | 36639 | 875 | 794 | 90.7429 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 52.0287 | 92.5996 | 36.1780 | 66.6261 | 488 | 39 | 496 | 875 | 863 | 98.6286 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.9157 | 91.6952 | 96.2464 | 33.3267 | 22502 | 2038 | 22436 | 875 | 753 | 86.0571 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.1518 | 97.8124 | 92.6322 | 56.2191 | 10865 | 243 | 11001 | 875 | 754 | 86.1714 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e0 | het | 96.7249 | 96.4527 | 96.9986 | 79.0213 | 28278 | 1040 | 28278 | 875 | 244 | 27.8857 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e1 | * | 96.9811 | 96.8334 | 97.1293 | 73.9180 | 29601 | 968 | 29605 | 875 | 409 | 46.7429 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.2427 | 99.4993 | 95.0863 | 76.1894 | 16890 | 85 | 16913 | 874 | 433 | 49.5423 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.2427 | 99.4993 | 95.0863 | 76.1894 | 16890 | 85 | 16913 | 874 | 433 | 49.5423 | |
| jlack-gatk | INDEL | I1_5 | * | het | 99.1970 | 99.4952 | 98.9006 | 61.6913 | 78642 | 399 | 78625 | 874 | 231 | 26.4302 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 29.2224 | 22.4601 | 41.8109 | 44.2465 | 619 | 2137 | 628 | 874 | 744 | 85.1259 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 90.7742 | 93.8101 | 87.9287 | 67.8048 | 5850 | 386 | 6359 | 873 | 348 | 39.8625 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6076 | 97.1467 | 98.0729 | 73.4952 | 44398 | 1304 | 44428 | 873 | 38 | 4.3528 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6076 | 97.1467 | 98.0729 | 73.4952 | 44398 | 1304 | 44428 | 873 | 38 | 4.3528 | |
| ckim-gatk | INDEL | * | HG002compoundhet | homalt | 61.0169 | 99.7085 | 43.9589 | 84.7301 | 684 | 2 | 684 | 872 | 869 | 99.6560 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e0 | * | 96.9548 | 96.8008 | 97.1093 | 73.8651 | 29290 | 968 | 29294 | 872 | 409 | 46.9037 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.9362 | 87.5375 | 65.5063 | 57.1453 | 1166 | 166 | 1656 | 872 | 119 | 13.6468 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.5431 | 94.7785 | 92.3395 | 52.9259 | 10528 | 580 | 10511 | 872 | 826 | 94.7248 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.1958 | 90.6831 | 95.8516 | 40.5987 | 20177 | 2073 | 20125 | 871 | 757 | 86.9116 | |
| gduggal-snapplat | INDEL | I6_15 | HG002compoundhet | * | 49.4889 | 36.1782 | 78.2955 | 43.1184 | 3175 | 5601 | 3142 | 871 | 568 | 65.2124 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 5.7762 | 27.5862 | 3.2258 | 99.1721 | 24 | 63 | 29 | 870 | 0 | 0.0000 | |
| ciseli-custom | SNP | * | map_l125_m0_e0 | homalt | 85.9540 | 85.1609 | 86.7620 | 68.6495 | 5716 | 996 | 5702 | 870 | 708 | 81.3793 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | homalt | 61.0714 | 99.7085 | 44.0154 | 84.7468 | 684 | 2 | 684 | 870 | 867 | 99.6552 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 77.1166 | 84.3061 | 71.0570 | 69.6058 | 1300 | 242 | 2131 | 868 | 620 | 71.4286 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 3.4199 | 30.9524 | 1.8100 | 87.7069 | 13 | 29 | 16 | 868 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 31.1683 | 21.1733 | 59.0373 | 57.3384 | 1256 | 4676 | 1251 | 868 | 834 | 96.0829 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.4033 | 98.6198 | 88.7109 | 85.7951 | 6788 | 95 | 6813 | 867 | 96 | 11.0727 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8360 | 99.8663 | 95.8865 | 61.2690 | 20172 | 27 | 20210 | 867 | 535 | 61.7070 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 73.1048 | 71.1289 | 75.1936 | 73.0650 | 2577 | 1046 | 2622 | 865 | 237 | 27.3988 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.0585 | 99.7289 | 92.6487 | 50.1527 | 11402 | 31 | 10889 | 864 | 45 | 5.2083 | |
| gduggal-bwafb | INDEL | I1_5 | HG002compoundhet | * | 88.8259 | 85.0923 | 92.9023 | 63.5931 | 10514 | 1842 | 11309 | 864 | 824 | 95.3704 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.5790 | 73.7247 | 96.4741 | 64.8422 | 23586 | 8406 | 23586 | 862 | 511 | 59.2807 | |
| ckim-isaac | SNP | ti | * | * | 98.6272 | 97.3318 | 99.9576 | 14.8667 | 2029873 | 55645 | 2030218 | 862 | 462 | 53.5963 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e1 | het | 98.1632 | 99.0762 | 97.2668 | 74.0488 | 30674 | 286 | 30676 | 862 | 158 | 18.3295 | |
| ckim-gatk | SNP | ti | map_siren | het | 96.2259 | 94.0079 | 98.5512 | 68.8261 | 58644 | 3738 | 58635 | 862 | 83 | 9.6288 | |
| jlack-gatk | SNP | * | map_l250_m1_e0 | * | 93.2444 | 97.7569 | 89.1302 | 92.5027 | 7060 | 162 | 7060 | 861 | 66 | 7.6655 | |