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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13401-13450 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.5329 | 95.0920 | 98.0180 | 79.6517 | 1085 | 56 | 1088 | 22 | 17 | 77.2727 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.9562 | 96.3303 | 97.5904 | 85.6699 | 420 | 16 | 405 | 10 | 5 | 50.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.3739 | 93.3105 | 99.6454 | 63.1854 | 544 | 39 | 562 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.6522 | 99.1803 | 92.3664 | 87.2444 | 121 | 1 | 121 | 10 | 10 | 100.0000 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5960 | 99.7232 | 99.4692 | 61.2535 | 55477 | 154 | 55466 | 296 | 29 | 9.7973 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4847 | 99.7826 | 99.1887 | 63.5467 | 35342 | 77 | 35331 | 289 | 22 | 7.6125 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.0000 | 92.3077 | 100.0000 | 83.3333 | 12 | 1 | 12 | 0 | 0 | ||
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7942 | 99.6237 | 99.9652 | 56.3615 | 20123 | 76 | 20123 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3055 | 99.0812 | 99.5308 | 74.4619 | 63839 | 592 | 63852 | 301 | 259 | 86.0465 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6452 | 99.7262 | 99.5644 | 75.3068 | 33145 | 91 | 33139 | 145 | 104 | 71.7241 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1124 | 94.7719 | 99.5714 | 64.0050 | 8810 | 486 | 8829 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6970 | 99.9315 | 99.4637 | 76.0277 | 21884 | 15 | 21884 | 118 | 117 | 99.1525 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3167 | 98.0869 | 98.5475 | 60.4971 | 15740 | 307 | 15741 | 232 | 216 | 93.1034 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.6238 | 99.4640 | 97.7977 | 72.6194 | 5567 | 30 | 5551 | 125 | 111 | 88.8000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7140 | 95.9777 | 99.5142 | 33.0521 | 6538 | 274 | 6555 | 32 | 32 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5789 | 95.9353 | 99.2797 | 63.8316 | 5098 | 216 | 5100 | 37 | 30 | 81.0811 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0504 | 98.6372 | 99.4670 | 77.6637 | 1520 | 21 | 1493 | 8 | 2 | 25.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7267 | 93.7500 | 99.8985 | 40.2385 | 2925 | 195 | 2954 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0480 | 100.0000 | 96.1708 | 73.2150 | 653 | 0 | 653 | 26 | 25 | 96.1538 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.4183 | 79.5592 | 79.2778 | 75.7467 | 51260 | 13170 | 51089 | 13354 | 8419 | 63.0448 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.5017 | 92.8720 | 80.9492 | 77.3758 | 30866 | 2369 | 31282 | 7362 | 3006 | 40.8313 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 5.0237 | 0.0000 | 0.0000 | 467 | 8829 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 83.2820 | 90.9950 | 76.7743 | 72.8145 | 19927 | 1972 | 19807 | 5992 | 5413 | 90.3371 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 50.1585 | 49.1836 | 51.1729 | 59.7079 | 7892 | 8154 | 7919 | 7556 | 5150 | 68.1578 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 67.2347 | 77.6447 | 59.2860 | 62.9451 | 4345 | 1251 | 4683 | 3216 | 1125 | 34.9813 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 4.3012 | 0.0000 | 0.0000 | 293 | 6519 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 57.8173 | 89.4447 | 42.7138 | 55.6700 | 3254 | 384 | 3236 | 4340 | 4025 | 92.7419 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 29.0131 | 33.3333 | 25.6842 | 96.3865 | 1 | 2 | 122 | 353 | 87 | 24.6459 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 42.0382 | 33.3333 | 56.8966 | 98.7039 | 1 | 2 | 33 | 25 | 3 | 12.0000 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 21.3429 | 95.1903 | 0 | 0 | 89 | 328 | 84 | 25.6098 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3227 | 99.7146 | 98.9339 | 60.9851 | 27599 | 79 | 27655 | 298 | 24 | 8.0537 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0130 | 99.6869 | 98.3480 | 64.2091 | 17513 | 55 | 17622 | 296 | 23 | 7.7703 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 92.3077 | 0.0000 | 0.0000 | 12 | 1 | 0 | 0 | 0 | ||
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8760 | 99.7722 | 99.9801 | 53.5072 | 10074 | 23 | 10033 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 29.6296 | 96.2238 | 0 | 0 | 8 | 19 | 8 | 42.1053 | |
| ciseli-custom | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 33.3333 | 97.6378 | 0 | 0 | 1 | 2 | 0 | 0.0000 | |
| ciseli-custom | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ciseli-custom | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 29.1667 | 95.9184 | 0 | 0 | 7 | 17 | 8 | 47.0588 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 51.3330 | 45.2682 | 59.2743 | 64.1063 | 1612 | 1949 | 1601 | 1100 | 1012 | 92.0000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.5683 | 53.9483 | 80.3942 | 65.4232 | 731 | 624 | 775 | 189 | 165 | 87.3016 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 3.8640 | 0.0000 | 0.0000 | 50 | 1244 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 62.4926 | 91.1184 | 47.5533 | 63.3312 | 831 | 81 | 826 | 911 | 847 | 92.9748 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 73.7262 | 74.1156 | 73.3408 | 74.2090 | 70000 | 24447 | 70171 | 25507 | 16983 | 66.5817 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 82.0846 | 86.7638 | 77.8844 | 75.9358 | 41880 | 6389 | 42785 | 12149 | 5113 | 42.0858 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 4.2940 | 0.0000 | 0.0000 | 662 | 14755 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 76.6853 | 89.2624 | 67.2148 | 71.4466 | 27458 | 3303 | 27386 | 13358 | 11870 | 88.8606 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 35.5556 | 100.0000 | 21.6216 | 96.1973 | 1 | 0 | 24 | 87 | 22 | 25.2874 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 72.0000 | 100.0000 | 56.2500 | 97.9408 | 1 | 0 | 9 | 7 | 0 | 0.0000 | |