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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60451-60500 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.2797 | 92.2197 | 90.3587 | 46.2002 | 403 | 34 | 403 | 43 | 19 | 44.1860 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 94.7121 | 90.9707 | 98.7745 | 28.0423 | 403 | 40 | 403 | 5 | 4 | 80.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 87.8953 | 92.2197 | 83.9583 | 47.5410 | 403 | 34 | 403 | 77 | 45 | 58.4416 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.9895 | 96.1722 | 97.8208 | 47.4555 | 402 | 16 | 404 | 9 | 7 | 77.7778 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e0 | het | 68.6425 | 53.0105 | 97.3494 | 80.9546 | 405 | 359 | 404 | 11 | 4 | 36.3636 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 89.7763 | 83.1250 | 97.5845 | 71.8559 | 399 | 81 | 404 | 10 | 10 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e0 | homalt | 79.4494 | 66.1211 | 99.5074 | 87.9739 | 404 | 207 | 404 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.7316 | 95.9538 | 91.6100 | 65.6542 | 332 | 14 | 404 | 37 | 20 | 54.0541 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 64.8475 | 48.3254 | 98.5366 | 81.1754 | 404 | 432 | 404 | 6 | 3 | 50.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 79.0433 | 68.6813 | 93.0876 | 67.1461 | 375 | 171 | 404 | 30 | 28 | 93.3333 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 89.3587 | 81.9106 | 98.2968 | 40.7781 | 403 | 89 | 404 | 7 | 6 | 85.7143 | |
| 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 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.2036 | 97.1649 | 99.2647 | 76.2791 | 377 | 11 | 405 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 63.1468 | 57.9627 | 69.3493 | 39.7938 | 404 | 293 | 405 | 179 | 173 | 96.6480 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.6093 | 96.3303 | 96.8900 | 85.7581 | 420 | 16 | 405 | 13 | 5 | 38.4615 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 92.7463 | 87.9765 | 98.0630 | 55.8289 | 300 | 41 | 405 | 8 | 8 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 99.1411 | 98.2968 | 100.0000 | 71.4386 | 404 | 7 | 405 | 0 | 0 | ||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 75.7737 | 66.0714 | 88.8158 | 57.1831 | 407 | 209 | 405 | 51 | 47 | 92.1569 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 51.0719 | 55.5556 | 47.2579 | 93.7840 | 400 | 320 | 405 | 452 | 26 | 5.7522 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m1_e0 | het | 87.4266 | 98.6622 | 78.4884 | 92.1449 | 295 | 4 | 405 | 111 | 38 | 34.2342 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 72.4442 | 68.0556 | 77.4379 | 54.5217 | 392 | 184 | 405 | 118 | 115 | 97.4576 | |
| gduggal-snapplat | INDEL | * | map_l100_m0_e0 | homalt | 83.5293 | 73.6739 | 96.4286 | 89.2418 | 375 | 134 | 405 | 15 | 1 | 6.6667 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 82.6345 | 81.9473 | 83.3333 | 60.9010 | 404 | 89 | 405 | 81 | 78 | 96.2963 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.8580 | 92.6773 | 99.2647 | 49.2537 | 405 | 32 | 405 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 74.7922 | 62.5000 | 93.1034 | 51.7203 | 385 | 231 | 405 | 30 | 30 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m0_e0 | het | 97.8094 | 98.2609 | 97.3621 | 87.4018 | 339 | 6 | 406 | 11 | 4 | 36.3636 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 86.8534 | 76.7619 | 100.0000 | 76.0472 | 403 | 122 | 406 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.5416 | 96.5596 | 98.5437 | 84.5866 | 421 | 15 | 406 | 6 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.8944 | 96.5596 | 99.2665 | 83.6203 | 421 | 15 | 406 | 3 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.5134 | 92.4528 | 98.7835 | 71.4781 | 98 | 8 | 406 | 5 | 2 | 40.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m1_e0 | het | 84.3881 | 76.1411 | 94.6387 | 94.4659 | 367 | 115 | 406 | 23 | 19 | 82.6087 | |
| anovak-vg | INDEL | I16_PLUS | * | het | 20.3076 | 12.3988 | 56.0773 | 46.0104 | 337 | 2381 | 406 | 318 | 57 | 17.9245 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.4245 | 96.5596 | 98.3051 | 85.6945 | 421 | 15 | 406 | 7 | 5 | 71.4286 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.0751 | 96.5596 | 97.5962 | 85.4240 | 421 | 15 | 406 | 10 | 6 | 60.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.9455 | 96.8900 | 99.0244 | 46.7532 | 405 | 13 | 406 | 4 | 4 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m1_e0 | homalt | 95.2448 | 91.7431 | 99.0244 | 77.8618 | 300 | 27 | 406 | 4 | 2 | 50.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 86.1165 | 76.7619 | 98.0676 | 77.3770 | 403 | 122 | 406 | 8 | 2 | 25.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 16.5768 | 23.8066 | 12.7153 | 80.3047 | 384 | 1229 | 406 | 2787 | 32 | 1.1482 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m2_e0 | * | 82.6518 | 77.8420 | 88.0952 | 95.5115 | 404 | 115 | 407 | 55 | 2 | 3.6364 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 65.9704 | 49.6410 | 98.3092 | 51.1216 | 484 | 491 | 407 | 7 | 4 | 57.1429 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.5432 | 96.7890 | 98.3092 | 83.9223 | 422 | 14 | 407 | 7 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 50.3713 | 34.4623 | 93.5632 | 71.0771 | 407 | 774 | 407 | 28 | 21 | 75.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 67.2522 | 88.7931 | 54.1223 | 65.4094 | 412 | 52 | 407 | 345 | 328 | 95.0725 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 91.8736 | 85.1464 | 99.7549 | 69.6654 | 407 | 71 | 407 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6602 | 96.7890 | 98.5472 | 85.8707 | 422 | 14 | 407 | 6 | 4 | 66.6667 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 76.1905 | 62.8659 | 96.6825 | 50.9872 | 408 | 241 | 408 | 14 | 13 | 92.8571 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 48.7196 | 38.0282 | 67.7741 | 83.0040 | 405 | 660 | 408 | 194 | 18 | 9.2784 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 68.8414 | 56.2500 | 88.6957 | 94.3586 | 405 | 315 | 408 | 52 | 9 | 17.3077 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.2940 | 95.6186 | 99.0291 | 76.0326 | 371 | 17 | 408 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | D1_5 | map_l125_m0_e0 | * | 80.9550 | 82.0565 | 79.8828 | 90.2159 | 407 | 89 | 409 | 103 | 43 | 41.7476 | |