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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78651-78700 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.8904 | 94.5946 | 97.2222 | 88.3871 | 35 | 2 | 35 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8643 | 99.7290 | 100.0000 | 81.9295 | 368 | 1 | 369 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0557 | 90.2945 | 95.9912 | 59.3990 | 2177 | 234 | 2179 | 91 | 83 | 91.2088 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0122 | 93.7922 | 96.2644 | 75.4150 | 695 | 46 | 670 | 26 | 21 | 80.7692 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0423 | 85.9024 | 99.1274 | 31.9073 | 1109 | 182 | 1136 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.4411 | 98.4169 | 87.1495 | 60.2600 | 373 | 6 | 373 | 55 | 54 | 98.1818 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | * | 100.0000 | 100.0000 | 100.0000 | 98.0000 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 97.1429 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2830 | 96.3585 | 98.2253 | 48.3467 | 19846 | 750 | 19870 | 359 | 319 | 88.8579 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0691 | 97.8061 | 98.3336 | 59.4584 | 7222 | 162 | 7199 | 122 | 98 | 80.3279 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.0004 | 93.1933 | 98.9817 | 26.3036 | 7544 | 551 | 7582 | 78 | 72 | 92.3077 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1100 | 99.2769 | 96.9703 | 51.0036 | 5080 | 37 | 5089 | 159 | 149 | 93.7107 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8063 | 97.1411 | 98.4806 | 47.1994 | 17737 | 522 | 17759 | 274 | 239 | 87.2263 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.3586 | 98.2333 | 98.4842 | 57.4113 | 6561 | 118 | 6562 | 101 | 80 | 79.2079 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6973 | 94.5364 | 98.9593 | 25.4960 | 6454 | 373 | 6466 | 68 | 64 | 94.1176 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5824 | 99.3478 | 97.8288 | 50.3389 | 4722 | 31 | 4731 | 105 | 95 | 90.4762 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3791 | 96.4809 | 98.2942 | 54.2906 | 21467 | 783 | 21493 | 373 | 326 | 87.3995 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1287 | 97.8680 | 98.3908 | 64.4221 | 8217 | 179 | 8193 | 134 | 104 | 77.6119 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.9616 | 93.1237 | 98.9779 | 28.5807 | 7611 | 562 | 7650 | 79 | 73 | 92.4051 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2431 | 99.2607 | 97.2461 | 57.3108 | 5639 | 42 | 5650 | 160 | 149 | 93.1250 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7710 | 96.8925 | 98.6656 | 61.3340 | 30432 | 976 | 30464 | 412 | 353 | 85.6796 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3287 | 97.7902 | 98.8731 | 68.6335 | 13453 | 304 | 13424 | 153 | 111 | 72.5490 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.1607 | 93.4776 | 99.0024 | 33.2299 | 8685 | 606 | 8733 | 88 | 82 | 93.1818 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5930 | 99.2105 | 97.9830 | 63.7025 | 8294 | 66 | 8307 | 171 | 160 | 93.5673 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1412 | 97.5428 | 98.7469 | 41.4519 | 23937 | 603 | 23956 | 304 | 264 | 86.8421 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.6463 | 98.4049 | 98.8889 | 50.5045 | 10241 | 166 | 10235 | 115 | 88 | 76.5217 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.4617 | 94.1911 | 98.8445 | 26.3329 | 6486 | 400 | 6501 | 76 | 73 | 96.0526 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.9716 | 99.4894 | 98.4590 | 36.7681 | 7210 | 37 | 7220 | 113 | 103 | 91.1504 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.5312 | 73.0273 | 87.3070 | 53.3227 | 509 | 188 | 509 | 74 | 73 | 98.6486 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 82.3970 | 81.4815 | 83.3333 | 78.7402 | 110 | 25 | 90 | 18 | 17 | 94.4444 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 80.2738 | 67.8208 | 98.3287 | 28.7698 | 333 | 158 | 353 | 6 | 6 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 70.5882 | 92.9577 | 56.8966 | 51.0549 | 66 | 5 | 66 | 50 | 50 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5409 | 99.1719 | 99.9126 | 55.4663 | 25149 | 210 | 25156 | 22 | 13 | 59.0909 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3977 | 98.8829 | 99.9179 | 55.5579 | 14605 | 165 | 14609 | 12 | 3 | 25.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.9056 | 96.5937 | 99.2537 | 71.5700 | 397 | 14 | 399 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8131 | 99.6954 | 99.9311 | 54.3062 | 10147 | 31 | 10148 | 7 | 7 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 100.0000 | 100.0000 | 100.0000 | 99.9969 | 1 | 0 | 4 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 100.0000 | 99.9954 | 0 | 0 | 3 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 100.0000 | 100.0000 | 100.0000 | 99.9924 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3362 | 98.9137 | 99.7624 | 51.3621 | 11746 | 129 | 11756 | 28 | 14 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8858 | 98.0576 | 99.7281 | 33.7984 | 1464 | 29 | 1467 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6034 | 99.3181 | 99.8903 | 51.3153 | 3641 | 25 | 3642 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.1659 | 95.8604 | 98.5075 | 61.5311 | 1181 | 51 | 1188 | 18 | 14 | 77.7778 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9530 | 95.0769 | 98.9045 | 23.1047 | 618 | 32 | 632 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7380 | 98.9848 | 98.4925 | 60.4374 | 195 | 2 | 196 | 3 | 2 | 66.6667 | |