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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72301-72350 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0261 | 98.9285 | 99.1239 | 73.3821 | 93437 | 1012 | 93346 | 825 | 733 | 88.8485 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3799 | 99.5525 | 99.2079 | 75.4457 | 48055 | 216 | 47847 | 382 | 297 | 77.7487 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2548 | 94.9731 | 99.6489 | 58.8526 | 14642 | 775 | 14759 | 52 | 52 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3343 | 99.9317 | 98.7440 | 74.3514 | 30740 | 21 | 30740 | 391 | 384 | 98.2097 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2429 | 98.9091 | 99.5790 | 55.5792 | 27654 | 305 | 27674 | 117 | 13 | 11.1111 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1774 | 98.9300 | 99.4261 | 58.2999 | 17660 | 191 | 17671 | 102 | 10 | 9.8039 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 41.6667 | 83.3333 | 27.7778 | 84.0708 | 5 | 1 | 5 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4277 | 98.8814 | 99.9800 | 49.5688 | 9989 | 113 | 9998 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6849 | 97.2767 | 98.0965 | 60.4473 | 15610 | 437 | 15615 | 303 | 282 | 93.0693 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0123 | 98.3920 | 97.6356 | 72.4102 | 5507 | 90 | 5492 | 133 | 121 | 90.9774 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.0207 | 95.3171 | 98.7864 | 34.4210 | 6493 | 319 | 6512 | 80 | 77 | 96.2500 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.3923 | 99.2303 | 97.5682 | 62.2540 | 3610 | 28 | 3611 | 90 | 84 | 93.3333 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 54.5816 | 47.5637 | 64.0290 | 69.1270 | 7409 | 8168 | 14395 | 8087 | 6755 | 83.5291 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 47.9368 | 36.5290 | 69.7055 | 72.0207 | 2229 | 3873 | 9137 | 3971 | 2851 | 71.7955 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 32.9741 | 0.0000 | 0.0000 | 1958 | 3980 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 69.4306 | 91.0941 | 56.0913 | 63.9073 | 3222 | 315 | 5258 | 4116 | 3904 | 94.8494 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.1202 | 97.0035 | 95.2529 | 60.1354 | 53964 | 1667 | 55240 | 2753 | 1338 | 48.6015 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.3736 | 96.4849 | 94.2876 | 62.2229 | 34174 | 1245 | 35108 | 2127 | 869 | 40.8557 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 23.0769 | 0.0000 | 0.0000 | 3 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4699 | 97.9603 | 96.9843 | 55.7493 | 19787 | 412 | 20132 | 626 | 469 | 74.9201 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.7089 | 96.7345 | 94.7048 | 54.9593 | 27046 | 913 | 27829 | 1556 | 769 | 49.4216 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.8371 | 96.1907 | 93.5210 | 57.8026 | 17171 | 680 | 17740 | 1229 | 505 | 41.0903 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 16.6667 | 0.0000 | 0.0000 | 1 | 5 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.2998 | 97.7430 | 96.8606 | 48.6593 | 9874 | 228 | 10089 | 327 | 264 | 80.7339 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.4923 | 97.2577 | 95.7388 | 64.3143 | 26919 | 759 | 27590 | 1228 | 588 | 47.8827 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.8647 | 96.7839 | 94.9628 | 65.9014 | 17003 | 565 | 17476 | 927 | 381 | 41.1003 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 23.0769 | 0.0000 | 0.0000 | 3 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6409 | 98.1777 | 97.1099 | 61.1163 | 9913 | 184 | 10114 | 301 | 207 | 68.7708 | |
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 39.2875 | 29.5634 | 58.5440 | 45.2777 | 1571 | 3743 | 3080 | 2181 | 1823 | 83.5855 | |
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 37.7291 | 27.7742 | 58.8070 | 42.9448 | 428 | 1113 | 2297 | 1609 | 1324 | 82.2871 | |
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 21.6987 | 0.0000 | 0.0000 | 677 | 2443 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 63.8608 | 71.3629 | 57.7860 | 51.0477 | 466 | 187 | 783 | 572 | 499 | 87.2378 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1675 | 99.0429 | 99.2924 | 73.5960 | 93545 | 904 | 93452 | 666 | 582 | 87.3874 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3786 | 99.4717 | 99.2856 | 75.6401 | 48016 | 255 | 47805 | 344 | 267 | 77.6163 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7545 | 95.9460 | 99.6325 | 60.1730 | 14792 | 625 | 14910 | 55 | 54 | 98.1818 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5289 | 99.9220 | 99.1388 | 74.4236 | 30737 | 24 | 30737 | 267 | 261 | 97.7528 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.9424 | 86.3802 | 89.5622 | 71.3205 | 3076 | 485 | 3089 | 360 | 326 | 90.5556 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.7858 | 90.4797 | 83.3817 | 76.0514 | 1226 | 129 | 1149 | 229 | 205 | 89.5197 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.9409 | 75.3478 | 100.0000 | 40.3027 | 975 | 319 | 1065 | 0 | 0 | ||
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.2409 | 95.9430 | 86.9781 | 77.5847 | 875 | 37 | 875 | 131 | 121 | 92.3664 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.5891 | 93.3138 | 95.8997 | 71.5881 | 60123 | 4308 | 60061 | 2568 | 2492 | 97.0405 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7763 | 96.4226 | 95.1386 | 69.4450 | 32047 | 1189 | 32017 | 1636 | 1576 | 96.3325 | |