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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71451-71500 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 90.8745 | 84.4894 | 98.3036 | 44.9837 | 6809 | 1250 | 1159 | 20 | 20 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 51.1783 | 36.9565 | 83.1933 | 65.7061 | 153 | 261 | 99 | 20 | 20 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 31.6497 | 19.5122 | 83.7398 | 62.9518 | 48 | 198 | 103 | 20 | 20 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 86.8556 | 84.1808 | 89.7059 | 59.6838 | 149 | 28 | 183 | 21 | 20 | 95.2381 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.5772 | 91.4508 | 67.3585 | 91.9490 | 353 | 33 | 357 | 173 | 20 | 11.5607 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6891 | 99.7744 | 99.6038 | 58.0494 | 11059 | 25 | 11062 | 44 | 20 | 45.4545 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.2945 | 99.0956 | 99.4942 | 40.3814 | 6684 | 61 | 6688 | 34 | 20 | 58.8235 | |
| gduggal-bwafb | SNP | * | map_l100_m2_e0 | homalt | 99.5956 | 99.3169 | 99.8758 | 64.6135 | 27335 | 188 | 27335 | 34 | 20 | 58.8235 | |
| gduggal-bwafb | SNP | * | map_l100_m2_e1 | homalt | 99.5977 | 99.3200 | 99.8770 | 64.6290 | 27607 | 189 | 27607 | 34 | 20 | 58.8235 | |
| gduggal-bwafb | SNP | tv | map_l150_m0_e0 | het | 97.3551 | 97.7489 | 96.9644 | 82.8486 | 2779 | 64 | 2779 | 87 | 20 | 22.9885 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 75.2576 | 62.8247 | 93.8257 | 69.9746 | 774 | 458 | 775 | 51 | 20 | 39.2157 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 76.3419 | 63.7874 | 95.0495 | 71.2046 | 384 | 218 | 384 | 20 | 20 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | segdup | * | 81.1709 | 76.0000 | 87.0968 | 88.6197 | 133 | 42 | 135 | 20 | 20 | 100.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 90.5642 | 94.2559 | 87.1508 | 72.0313 | 361 | 22 | 312 | 46 | 20 | 43.4783 | |
| gduggal-bwafb | INDEL | * | map_l100_m1_e0 | * | 96.2346 | 94.2833 | 98.2684 | 83.2956 | 3381 | 205 | 3405 | 60 | 20 | 33.3333 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e0 | * | 96.2600 | 94.2865 | 98.3179 | 84.2676 | 3482 | 211 | 3507 | 60 | 20 | 33.3333 | |
| gduggal-bwafb | INDEL | * | map_siren | het | 96.6142 | 94.9645 | 98.3223 | 79.9104 | 4281 | 227 | 4454 | 76 | 20 | 26.3158 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002compoundhet | hetalt | 85.9482 | 75.6238 | 99.5374 | 35.2988 | 6456 | 2081 | 6455 | 30 | 20 | 66.6667 | |
| gduggal-bwaplat | SNP | * | segdup | * | 98.6033 | 97.9585 | 99.2566 | 93.9219 | 27494 | 573 | 27505 | 206 | 20 | 9.7087 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e1 | * | 81.3480 | 68.8368 | 99.4174 | 84.4949 | 17404 | 7879 | 17405 | 102 | 20 | 19.6078 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e1 | het | 85.4123 | 75.0157 | 99.1542 | 86.7876 | 11956 | 3982 | 11958 | 102 | 20 | 19.6078 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 76.0875 | 71.7742 | 80.9524 | 99.8808 | 89 | 35 | 119 | 28 | 20 | 71.4286 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 81.4440 | 85.0575 | 78.1250 | 99.8790 | 74 | 13 | 100 | 28 | 20 | 71.4286 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m1_e0 | het | 60.6733 | 86.9565 | 46.5909 | 92.8397 | 40 | 6 | 41 | 47 | 20 | 42.5532 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m2_e0 | het | 61.8474 | 87.5000 | 47.8261 | 93.3765 | 42 | 6 | 44 | 48 | 20 | 41.6667 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e1 | * | 92.6122 | 96.6292 | 88.9159 | 89.2090 | 1118 | 39 | 1099 | 137 | 20 | 14.5985 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m0_e0 | * | 73.5260 | 73.7864 | 73.2673 | 91.6529 | 76 | 27 | 74 | 27 | 20 | 74.0741 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m0_e0 | het | 81.3793 | 100.0000 | 68.6047 | 92.0591 | 60 | 0 | 59 | 27 | 20 | 74.0741 | |
| gduggal-bwavard | INDEL | I16_PLUS | map_siren | * | 61.0410 | 60.4651 | 61.6279 | 85.1724 | 52 | 34 | 53 | 33 | 20 | 60.6061 | |
| gduggal-bwavard | INDEL | I16_PLUS | map_siren | het | 68.1638 | 85.7143 | 56.5789 | 85.0099 | 42 | 7 | 43 | 33 | 20 | 60.6061 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m1_e0 | * | 94.6449 | 95.3012 | 93.9976 | 87.8589 | 791 | 39 | 783 | 50 | 20 | 40.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.2001 | 97.4711 | 98.9400 | 41.0943 | 7169 | 186 | 7094 | 76 | 20 | 26.3158 | |
| gduggal-bwavard | SNP | ti | map_l250_m1_e0 | het | 87.4417 | 97.6415 | 79.1712 | 92.9128 | 2898 | 70 | 2885 | 759 | 20 | 2.6351 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.9920 | 92.6052 | 99.6360 | 39.6618 | 5460 | 436 | 5475 | 20 | 20 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.9920 | 92.6052 | 99.6360 | 39.6618 | 5460 | 436 | 5475 | 20 | 20 | 100.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7162 | 99.7111 | 99.7214 | 67.6049 | 9664 | 28 | 9664 | 27 | 20 | 74.0741 | |
| rpoplin-dv42 | SNP | * | map_l125_m0_e0 | homalt | 99.0933 | 98.5101 | 99.6834 | 69.3810 | 6612 | 100 | 6612 | 21 | 20 | 95.2381 | |
| rpoplin-dv42 | SNP | ti | HG002compoundhet | homalt | 99.7770 | 99.8377 | 99.7163 | 30.8389 | 7382 | 12 | 7382 | 21 | 20 | 95.2381 | |
| raldana-dualsentieon | SNP | ti | HG002complexvar | homalt | 99.9811 | 99.9726 | 99.9897 | 18.3281 | 193410 | 53 | 193401 | 20 | 20 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e1 | het | 97.6450 | 97.2258 | 98.0678 | 84.3523 | 2278 | 65 | 2284 | 45 | 20 | 44.4444 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 90.7027 | 85.0765 | 97.1257 | 47.5173 | 667 | 117 | 811 | 24 | 20 | 83.3333 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 70.1173 | 56.6230 | 92.0561 | 70.3396 | 389 | 298 | 394 | 34 | 20 | 58.8235 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 66.5163 | 53.3333 | 88.3562 | 71.0030 | 256 | 224 | 258 | 34 | 20 | 58.8235 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7263 | 88.4232 | 97.4697 | 64.7401 | 886 | 116 | 886 | 23 | 20 | 86.9565 | |
| ckim-vqsr | SNP | ti | HG002complexvar | homalt | 98.3712 | 96.8046 | 99.9893 | 18.7775 | 187281 | 6182 | 187271 | 20 | 20 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9263 | 98.3656 | 99.4933 | 72.9052 | 30634 | 509 | 30634 | 156 | 20 | 12.8205 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9263 | 98.3656 | 99.4933 | 72.9052 | 30634 | 509 | 30634 | 156 | 20 | 12.8205 | |
| ckim-vqsr | SNP | ti | map_siren | het | 91.0834 | 83.9713 | 99.5117 | 71.3937 | 52383 | 9999 | 52376 | 257 | 20 | 7.7821 | |
| ckim-vqsr | SNP | tv | HG002complexvar | * | 98.6339 | 97.3216 | 99.9820 | 22.8566 | 239559 | 6593 | 239468 | 43 | 20 | 46.5116 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6983 | 97.4954 | 97.9021 | 76.6822 | 2102 | 54 | 2100 | 45 | 20 | 44.4444 | |