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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25251-25300 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D16_PLUS | segdup | * | 86.7257 | 84.4828 | 89.0909 | 92.1090 | 49 | 9 | 49 | 6 | 3 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | segdup | het | 86.4020 | 89.1892 | 83.7838 | 91.6290 | 33 | 4 | 31 | 6 | 3 | 50.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 97.2482 | 95.2381 | 99.3450 | 30.3951 | 440 | 22 | 455 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m0_e0 | het | 83.0777 | 72.2504 | 97.7221 | 87.1675 | 427 | 164 | 429 | 10 | 3 | 30.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 77.8589 | 68.0851 | 90.9091 | 88.5813 | 32 | 15 | 30 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 77.0186 | 66.6667 | 91.1765 | 89.5706 | 32 | 16 | 31 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e1 | hetalt | 77.1930 | 66.6667 | 91.6667 | 89.2216 | 34 | 17 | 33 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m1_e0 | het | 81.7401 | 69.9725 | 98.2659 | 88.4897 | 508 | 218 | 510 | 9 | 3 | 33.3333 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e0 | het | 82.3461 | 70.8115 | 98.3696 | 88.9842 | 541 | 223 | 543 | 9 | 3 | 33.3333 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e1 | het | 82.2394 | 70.6494 | 98.3784 | 89.0597 | 544 | 226 | 546 | 9 | 3 | 33.3333 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m1_e0 | * | 76.6610 | 62.7615 | 98.4683 | 90.0131 | 450 | 267 | 450 | 7 | 3 | 42.8571 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m2_e0 | * | 76.9968 | 63.1717 | 98.5685 | 90.5306 | 482 | 281 | 482 | 7 | 3 | 42.8571 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m2_e1 | * | 76.8627 | 62.9820 | 98.5915 | 90.5369 | 490 | 288 | 490 | 7 | 3 | 42.8571 | |
| ckim-isaac | INDEL | D1_5 | segdup | * | 98.5851 | 97.9148 | 99.2647 | 92.9825 | 1080 | 23 | 1080 | 8 | 3 | 37.5000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 75.3650 | 64.1026 | 91.4286 | 63.5417 | 25 | 14 | 32 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 60.4255 | 44.0994 | 95.9459 | 40.8000 | 71 | 90 | 71 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 90.9744 | 92.2581 | 89.7260 | 80.4813 | 143 | 12 | 131 | 15 | 3 | 20.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 83.3906 | 75.6757 | 92.8571 | 77.4194 | 28 | 9 | 39 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 56.1404 | 44.4444 | 76.1905 | 92.0152 | 4 | 5 | 16 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 95.7409 | 92.2945 | 99.4545 | 25.2717 | 539 | 45 | 547 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m1_e0 | het | 60.9393 | 45.2381 | 93.3333 | 89.3993 | 57 | 69 | 56 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | het | 60.8031 | 45.0382 | 93.5484 | 89.8527 | 59 | 72 | 58 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e1 | het | 60.2597 | 44.4444 | 93.5484 | 90.0000 | 60 | 75 | 58 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 67.5729 | 51.2864 | 99.0164 | 50.3257 | 299 | 284 | 302 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 78.2135 | 67.4157 | 93.1298 | 72.7651 | 120 | 58 | 122 | 9 | 3 | 33.3333 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 62.4562 | 45.8781 | 97.7941 | 50.0000 | 128 | 151 | 133 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 68.3544 | 57.4468 | 84.3750 | 66.6667 | 27 | 20 | 27 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 67.6923 | 66.6667 | 68.7500 | 71.4286 | 10 | 5 | 11 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 84.1017 | 76.1905 | 93.8462 | 56.9536 | 64 | 20 | 61 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.9412 | 81.2500 | 95.8333 | 63.6364 | 91 | 21 | 92 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | I1_5 | map_siren | homalt | 84.1104 | 72.9373 | 99.3258 | 73.3293 | 884 | 328 | 884 | 6 | 3 | 50.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.3899 | 73.5955 | 93.5714 | 59.8854 | 131 | 47 | 131 | 9 | 3 | 33.3333 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 85.8676 | 81.3559 | 90.9091 | 64.8402 | 144 | 33 | 140 | 14 | 3 | 21.4286 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.6652 | 82.2314 | 93.8679 | 58.9147 | 199 | 43 | 199 | 13 | 3 | 23.0769 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7650 | 99.8824 | 99.6479 | 51.0626 | 849 | 1 | 849 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7049 | 96.8468 | 98.5782 | 88.2123 | 645 | 21 | 624 | 9 | 3 | 33.3333 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7049 | 96.8468 | 98.5782 | 88.2123 | 645 | 21 | 624 | 9 | 3 | 33.3333 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.0888 | 95.0000 | 97.2028 | 90.0070 | 152 | 8 | 139 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 97.2852 | 94.7392 | 99.9718 | 57.2014 | 10589 | 588 | 10650 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9387 | 96.0088 | 99.9477 | 63.4628 | 5701 | 237 | 5737 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3716 | 99.1196 | 99.6249 | 78.0612 | 1351 | 12 | 1328 | 5 | 3 | 60.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6608 | 99.4733 | 99.8491 | 69.8452 | 2644 | 14 | 2646 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2662 | 99.3541 | 99.1784 | 74.9780 | 1692 | 11 | 1690 | 14 | 3 | 21.4286 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6666 | 99.6190 | 99.7143 | 62.5668 | 1046 | 4 | 1047 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m0_e0 | * | 98.6228 | 98.7109 | 98.5348 | 85.9278 | 536 | 7 | 538 | 8 | 3 | 37.5000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.8067 | 99.5192 | 98.1043 | 81.0762 | 207 | 1 | 207 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0176 | 98.6372 | 99.4008 | 77.5553 | 1520 | 21 | 1493 | 9 | 3 | 33.3333 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.3835 | 94.9801 | 99.9116 | 43.2609 | 3349 | 177 | 3390 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.0725 | 92.1348 | 98.2036 | 72.7124 | 164 | 14 | 164 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.0000 | 100.0000 | 92.3077 | 69.0476 | 36 | 0 | 36 | 3 | 3 | 100.0000 | |