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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14401-14450 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6217 | 99.0631 | 98.1843 | 79.0142 | 28443 | 269 | 28443 | 526 | 29 | 5.5133 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 100.0000 | 100.0000 | 100.0000 | 94.1176 | 15 | 0 | 15 | 0 | 0 | ||
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5328 | 99.1399 | 99.9287 | 67.1581 | 16829 | 146 | 16829 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1915 | 97.4975 | 98.8955 | 61.4377 | 30622 | 786 | 30622 | 342 | 309 | 90.3509 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8269 | 98.7352 | 98.9188 | 69.0820 | 13583 | 174 | 13540 | 148 | 116 | 78.3784 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4888 | 93.5852 | 99.5783 | 30.8129 | 8695 | 596 | 8738 | 37 | 37 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9740 | 99.8086 | 98.1532 | 63.5791 | 8344 | 16 | 8344 | 157 | 156 | 99.3631 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1507 | 99.0803 | 97.2383 | 83.3124 | 9049 | 84 | 9049 | 257 | 10 | 3.8911 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 100.0000 | 100.0000 | 100.0000 | 94.1176 | 15 | 0 | 15 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5930 | 99.2808 | 99.9072 | 72.4630 | 5384 | 39 | 5384 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7400 | 96.1684 | 99.3638 | 68.4150 | 15461 | 616 | 15462 | 99 | 69 | 69.6970 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6890 | 98.1776 | 99.2058 | 77.1478 | 6303 | 117 | 6246 | 50 | 22 | 44.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.7952 | 91.9607 | 99.9635 | 35.1166 | 5422 | 474 | 5480 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0456 | 99.3353 | 98.7576 | 71.4856 | 3736 | 25 | 3736 | 47 | 45 | 95.7447 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9463 | 95.1598 | 98.8011 | 63.5083 | 6016 | 306 | 6016 | 73 | 59 | 80.8219 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1487 | 97.4632 | 98.8439 | 76.5004 | 1921 | 50 | 1881 | 22 | 11 | 50.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.2496 | 92.7964 | 99.9698 | 39.4554 | 3272 | 254 | 3312 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.9376 | 99.7576 | 94.2726 | 71.9833 | 823 | 2 | 823 | 50 | 47 | 94.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1803 | 96.5537 | 97.8151 | 57.7486 | 17062 | 609 | 17057 | 381 | 365 | 95.8005 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4782 | 93.6096 | 99.5281 | 29.2918 | 7544 | 515 | 7592 | 36 | 36 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.0831 | 94.5752 | 97.6399 | 85.2261 | 1447 | 83 | 1448 | 35 | 20 | 57.1429 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.1476 | 94.4444 | 97.9133 | 88.6665 | 629 | 37 | 610 | 13 | 3 | 23.0769 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.3185 | 93.1715 | 99.6855 | 68.3267 | 614 | 45 | 634 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.1049 | 99.5122 | 91.0714 | 91.1567 | 204 | 1 | 204 | 20 | 15 | 75.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0878 | 99.0624 | 99.1133 | 72.7315 | 30851 | 292 | 30851 | 276 | 26 | 9.4203 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8431 | 99.0551 | 98.6319 | 76.1009 | 19394 | 185 | 19394 | 269 | 19 | 7.0632 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.7711 | 12 | 0 | 12 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5044 | 99.0738 | 99.9389 | 63.8841 | 11445 | 107 | 11445 | 7 | 7 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.6766 | 79.8823 | 85.6735 | 55.5568 | 14116 | 3555 | 14119 | 2361 | 2322 | 98.3482 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 83.0571 | 91.0366 | 76.3636 | 59.1295 | 5322 | 524 | 5292 | 1638 | 1616 | 98.6569 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.9120 | 63.9658 | 99.6350 | 31.9608 | 5155 | 2904 | 5186 | 19 | 18 | 94.7368 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.7564 | 96.6277 | 83.7975 | 65.1703 | 3639 | 127 | 3641 | 704 | 688 | 97.7273 | |
| mlin-fermikit | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.6898 | 82.8388 | 93.1443 | 61.7926 | 13318 | 2759 | 13301 | 979 | 950 | 97.0378 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.9117 | 92.0249 | 89.8250 | 65.4470 | 5908 | 512 | 5853 | 663 | 643 | 96.9834 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.7226 | 63.9247 | 99.1164 | 40.0903 | 3769 | 2127 | 3814 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.7617 | 96.8094 | 92.7988 | 67.6203 | 3641 | 120 | 3634 | 282 | 273 | 96.8085 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 83.7086 | 81.9364 | 85.5593 | 74.2891 | 4096 | 903 | 4100 | 692 | 601 | 86.8497 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 79.5102 | 66.0798 | 99.7928 | 43.7451 | 1276 | 655 | 1445 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.7219 | 95.2762 | 84.7795 | 79.3418 | 1190 | 59 | 1192 | 214 | 189 | 88.3178 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.3770 | 92.9127 | 87.9760 | 55.1468 | 12782 | 975 | 12731 | 1740 | 1664 | 95.6322 | |