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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67801-67850 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9883 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.2891 | 91.6084 | 99.2780 | 52.0761 | 262 | 24 | 275 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.7959 | 100.0000 | 81.4815 | 87.3832 | 22 | 0 | 22 | 5 | 5 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.3747 | 93.0131 | 97.8593 | 82.1067 | 639 | 48 | 640 | 14 | 12 | 85.7143 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1978 | 94.7154 | 97.7273 | 88.5833 | 233 | 13 | 215 | 5 | 3 | 60.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.9242 | 90.7895 | 99.4536 | 60.9392 | 345 | 35 | 364 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.5736 | 100.0000 | 89.7059 | 91.4033 | 61 | 0 | 61 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.8901 | 95.6863 | 98.1246 | 84.9192 | 1464 | 66 | 1465 | 28 | 18 | 64.2857 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4013 | 96.9970 | 97.8091 | 88.3245 | 646 | 20 | 625 | 14 | 5 | 35.7143 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4002 | 93.3232 | 99.6870 | 67.8894 | 615 | 44 | 637 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.7735 | 92.5000 | 97.1616 | 81.7457 | 444 | 36 | 445 | 13 | 12 | 92.3077 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0949 | 93.7500 | 96.4789 | 89.8208 | 150 | 10 | 137 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | C6_15 | tech_badpromoters | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-gatk | INDEL | D16_PLUS | * | * | 97.7762 | 97.9953 | 97.5581 | 71.4634 | 6648 | 136 | 6632 | 166 | 106 | 63.8554 | |
| ckim-gatk | INDEL | D16_PLUS | * | het | 97.6163 | 99.3985 | 95.8968 | 79.2687 | 3140 | 19 | 2898 | 124 | 70 | 56.4516 | |
| ckim-gatk | INDEL | D16_PLUS | * | hetalt | 96.6957 | 94.2059 | 99.3207 | 38.1824 | 1821 | 112 | 2047 | 14 | 14 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | * | homalt | 99.0314 | 99.7045 | 98.3673 | 70.9863 | 1687 | 5 | 1687 | 28 | 22 | 78.5714 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.6146 | 97.6263 | 97.6030 | 66.9174 | 1604 | 39 | 1588 | 39 | 28 | 71.7949 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | het | 98.3088 | 98.9160 | 97.7090 | 68.8770 | 1095 | 12 | 853 | 20 | 10 | 50.0000 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.2896 | 89.8785 | 96.9697 | 47.4403 | 222 | 25 | 448 | 14 | 14 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 98.7952 | 99.3080 | 98.2877 | 76.3371 | 287 | 2 | 287 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | D16_PLUS | HG002compoundhet | * | 95.5256 | 95.3012 | 95.7511 | 35.3496 | 2231 | 110 | 2231 | 99 | 96 | 96.9697 | |
| ckim-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 88.7912 | 99.7531 | 80.0000 | 59.4286 | 404 | 1 | 284 | 71 | 68 | 95.7746 | |
| ckim-gatk | INDEL | D16_PLUS | HG002compoundhet | hetalt | 96.8969 | 94.3465 | 99.5891 | 25.8850 | 1819 | 109 | 1939 | 8 | 8 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | HG002compoundhet | homalt | 44.4444 | 100.0000 | 28.5714 | 72.5490 | 8 | 0 | 8 | 20 | 20 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | decoy | * | 100.0000 | 100.0000 | 100.0000 | 99.5807 | 6 | 0 | 6 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | decoy | het | 100.0000 | 100.0000 | 100.0000 | 99.6572 | 4 | 0 | 4 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | decoy | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| ckim-gatk | INDEL | D16_PLUS | decoy | homalt | 100.0000 | 100.0000 | 100.0000 | 99.1304 | 2 | 0 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | func_cds | * | 100.0000 | 100.0000 | 100.0000 | 83.3333 | 12 | 0 | 12 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 85.4545 | 8 | 0 | 8 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | func_cds | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-gatk | INDEL | D16_PLUS | func_cds | homalt | 100.0000 | 100.0000 | 100.0000 | 76.4706 | 4 | 0 | 4 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6301 | 95.4887 | 95.7720 | 73.1847 | 2032 | 96 | 2016 | 89 | 78 | 87.6404 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.2428 | 98.0451 | 88.8889 | 87.2266 | 652 | 13 | 488 | 61 | 51 | 83.6066 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.2725 | 91.6923 | 99.1437 | 39.7362 | 894 | 81 | 1042 | 9 | 9 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.8852 | 99.5902 | 96.2376 | 72.0686 | 486 | 2 | 486 | 19 | 18 | 94.7368 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 75.0000 | 75.0000 | 75.0000 | 99.5526 | 3 | 1 | 3 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 99.8487 | 1 | 0 | 1 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 87.5000 | 1 | 0 | 1 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 50.0000 | 50.0000 | 50.0000 | 99.1111 | 1 | 1 | 1 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2889 | 98.3993 | 98.1788 | 72.3290 | 3504 | 57 | 3504 | 65 | 45 | 69.2308 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.9160 | 99.5572 | 96.3281 | 83.1889 | 1349 | 6 | 1233 | 47 | 30 | 63.8298 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8234 | 96.2133 | 99.4883 | 36.4312 | 1245 | 49 | 1361 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.2908 | 99.7807 | 98.8056 | 70.5939 | 910 | 2 | 910 | 11 | 8 | 72.7273 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1889 | 97.3395 | 97.0388 | 75.6563 | 4866 | 133 | 4850 | 148 | 106 | 71.6216 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.2770 | 99.0654 | 93.6413 | 86.2049 | 1802 | 17 | 1561 | 106 | 70 | 66.0377 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.7195 | 94.2517 | 99.3201 | 38.1124 | 1820 | 111 | 2045 | 14 | 14 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6910 | 99.5997 | 97.7987 | 75.1563 | 1244 | 5 | 1244 | 28 | 22 | 78.5714 | |