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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62351-62400 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.3656 | 94.1057 | 96.6597 | 54.6402 | 463 | 29 | 463 | 16 | 13 | 81.2500 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.6061 | 79.5775 | 92.6230 | 28.6550 | 113 | 29 | 113 | 9 | 9 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 91.2624 | 91.6185 | 90.9091 | 64.6231 | 317 | 29 | 320 | 32 | 16 | 50.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6200 | 99.3718 | 99.8694 | 32.0414 | 4587 | 29 | 4588 | 6 | 2 | 33.3333 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.3034 | 71.2871 | 94.5946 | 91.5813 | 72 | 29 | 70 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | * | map_l150_m1_e0 | het | 96.7203 | 96.6082 | 96.8326 | 87.6550 | 826 | 29 | 1070 | 35 | 18 | 51.4286 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4715 | 98.9485 | 100.0000 | 36.3424 | 2729 | 29 | 2729 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7255 | 97.6911 | 97.7600 | 78.8994 | 1227 | 29 | 1222 | 28 | 7 | 25.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | * | 97.9875 | 97.9847 | 97.9903 | 91.3313 | 1410 | 29 | 1414 | 29 | 7 | 24.1379 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.8851 | 96.3010 | 99.5221 | 33.9384 | 755 | 29 | 833 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.4918 | 82.6347 | 100.0000 | 64.3038 | 138 | 29 | 141 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | map_l125_m1_e0 | het | 95.7449 | 96.0055 | 95.4856 | 91.8049 | 697 | 29 | 698 | 33 | 3 | 9.0909 | |
| ckim-vqsr | INDEL | I1_5 | map_l125_m1_e0 | het | 95.8095 | 94.0329 | 97.6546 | 92.0238 | 457 | 29 | 458 | 11 | 1 | 9.0909 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.6856 | 95.4758 | 100.0000 | 40.5222 | 612 | 29 | 615 | 0 | 0 | ||
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2158 | 98.9203 | 99.5131 | 53.0673 | 2657 | 29 | 2657 | 13 | 2 | 15.3846 | |
| ndellapenna-hhga | INDEL | I1_5 | map_siren | het | 98.8036 | 98.2748 | 99.3381 | 80.3824 | 1652 | 29 | 1651 | 11 | 1 | 9.0909 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.2011 | 96.5962 | 95.8091 | 80.4640 | 823 | 29 | 823 | 36 | 31 | 86.1111 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.5750 | 98.2820 | 98.8697 | 60.9705 | 1659 | 29 | 1662 | 19 | 15 | 78.9474 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | homalt | 98.4034 | 99.1440 | 97.6737 | 43.8897 | 3359 | 29 | 3359 | 80 | 78 | 97.5000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 90.5470 | 96.0437 | 85.6454 | 67.9552 | 704 | 29 | 710 | 119 | 13 | 10.9244 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.2977 | 92.4479 | 98.3287 | 77.4356 | 355 | 29 | 353 | 6 | 1 | 16.6667 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6029 | 99.2089 | 100.0000 | 43.0390 | 3637 | 29 | 3625 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.7383 | 95.2537 | 98.2699 | 61.6457 | 582 | 29 | 568 | 10 | 9 | 90.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 90.9072 | 83.7989 | 99.3333 | 37.2385 | 150 | 29 | 149 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l100_m1_e0 | het | 97.5190 | 96.2677 | 98.8032 | 75.9360 | 748 | 29 | 743 | 9 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.5278 | 99.3248 | 97.7435 | 64.5151 | 4266 | 29 | 4245 | 98 | 7 | 7.1429 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.8252 | 96.8237 | 91.0068 | 91.2594 | 884 | 29 | 931 | 92 | 19 | 20.6522 | |
| ndellapenna-hhga | INDEL | * | map_l100_m0_e0 | het | 97.0778 | 97.1596 | 96.9961 | 85.3472 | 992 | 29 | 1001 | 31 | 4 | 12.9032 | |
| ndellapenna-hhga | INDEL | * | map_l150_m2_e1 | het | 97.3952 | 96.8615 | 97.9348 | 89.3740 | 895 | 29 | 901 | 19 | 5 | 26.3158 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 79.3320 | 92.4675 | 69.4643 | 60.8392 | 356 | 29 | 389 | 171 | 153 | 89.4737 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m1_e0 | het | 97.7235 | 97.6013 | 97.8459 | 81.5387 | 1180 | 29 | 1181 | 26 | 9 | 34.6154 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | het | 97.8087 | 97.6911 | 97.9266 | 82.2279 | 1227 | 29 | 1228 | 26 | 9 | 34.6154 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e1 | het | 97.7909 | 97.7129 | 97.8690 | 82.3415 | 1239 | 29 | 1240 | 27 | 9 | 33.3333 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 82.6785 | 85.8537 | 79.7297 | 84.6367 | 176 | 29 | 177 | 45 | 26 | 57.7778 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 82.6785 | 85.8537 | 79.7297 | 84.6367 | 176 | 29 | 177 | 45 | 26 | 57.7778 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.8778 | 96.0437 | 91.8075 | 72.7305 | 704 | 29 | 706 | 63 | 44 | 69.8413 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.6709 | 97.2719 | 98.0732 | 76.6321 | 1034 | 29 | 1018 | 20 | 19 | 95.0000 | |
| mlin-fermikit | INDEL | I6_15 | map_siren | het | 82.8019 | 79.7203 | 86.1314 | 81.4363 | 114 | 29 | 118 | 19 | 17 | 89.4737 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.9788 | 98.1646 | 99.8066 | 46.6460 | 1551 | 29 | 1548 | 3 | 1 | 33.3333 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.4568 | 95.9554 | 85.5542 | 61.1138 | 688 | 29 | 687 | 116 | 94 | 81.0345 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.4185 | 78.1955 | 87.1237 | 60.0801 | 104 | 29 | 521 | 77 | 54 | 70.1299 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m1_e0 | * | 97.0194 | 97.3346 | 96.7063 | 87.6399 | 1059 | 29 | 1057 | 36 | 5 | 13.8889 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e0 | * | 97.0354 | 97.4628 | 96.6116 | 88.3585 | 1114 | 29 | 1112 | 39 | 5 | 12.8205 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e1 | * | 97.0711 | 97.4935 | 96.6524 | 88.4160 | 1128 | 29 | 1126 | 39 | 5 | 12.8205 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8066 | 99.2505 | 98.3666 | 68.3281 | 3840 | 29 | 3794 | 63 | 61 | 96.8254 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4894 | 99.5224 | 99.4565 | 52.2754 | 6043 | 29 | 6039 | 33 | 33 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.0513 | 91.9890 | 94.1385 | 58.2808 | 333 | 29 | 1060 | 66 | 64 | 96.9697 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.3322 | 95.2381 | 97.4518 | 62.1184 | 580 | 29 | 1415 | 37 | 32 | 86.4865 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m1_e0 | het | 96.0240 | 97.6013 | 94.4969 | 82.5992 | 1180 | 29 | 1202 | 70 | 7 | 10.0000 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8341 | 99.7463 | 97.9383 | 44.8790 | 11404 | 29 | 11401 | 240 | 3 | 1.2500 | |