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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59451-59500 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.1376 | 76.8293 | 92.9825 | 64.4860 | 63 | 19 | 106 | 8 | 8 | 100.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.4172 | 77.6471 | 100.0000 | 57.9832 | 66 | 19 | 50 | 0 | 0 | ||
| qzeng-custom | INDEL | I6_15 | map_siren | hetalt | 84.8000 | 73.6111 | 100.0000 | 78.3333 | 53 | 19 | 26 | 0 | 0 | ||
| qzeng-custom | SNP | * | map_siren | hetalt | 86.0912 | 76.5432 | 98.3607 | 83.9474 | 62 | 19 | 60 | 1 | 0 | 0.0000 | |
| qzeng-custom | SNP | ti | func_cds | * | 99.7894 | 99.8622 | 99.7168 | 26.7032 | 13768 | 19 | 13732 | 39 | 4 | 10.2564 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6434 | 99.5326 | 99.7544 | 48.4618 | 4046 | 19 | 4061 | 10 | 1 | 10.0000 | |
| qzeng-custom | SNP | tv | map_siren | hetalt | 86.0912 | 76.5432 | 98.3607 | 83.9474 | 62 | 19 | 60 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 91.6616 | 88.6905 | 94.8387 | 78.7962 | 149 | 19 | 147 | 8 | 6 | 75.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m2_e1 | het | 98.3825 | 97.6543 | 99.1217 | 84.6554 | 791 | 19 | 790 | 7 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.1773 | 98.9247 | 99.4312 | 56.1924 | 1748 | 19 | 1748 | 10 | 10 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 92.2449 | 85.6061 | 100.0000 | 78.4553 | 113 | 19 | 53 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.9006 | 95.8874 | 100.0000 | 43.1730 | 443 | 19 | 437 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 83.0362 | 72.0588 | 97.9592 | 95.6980 | 49 | 19 | 48 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l100_m2_e0 | * | 87.0856 | 78.8889 | 97.1831 | 84.3612 | 71 | 19 | 69 | 2 | 1 | 50.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m1_e0 | het | 97.5790 | 96.0581 | 99.1489 | 78.9615 | 463 | 19 | 466 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m2_e0 | het | 97.7334 | 96.3035 | 99.2063 | 80.3967 | 495 | 19 | 500 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 90.7360 | 87.1622 | 94.6154 | 66.3212 | 129 | 19 | 123 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l100_m0_e0 | het | 96.3873 | 94.1718 | 98.7097 | 75.2988 | 307 | 19 | 306 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l150_m1_e0 | * | 97.6874 | 96.2451 | 99.1736 | 84.0842 | 487 | 19 | 480 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_siren | * | 96.2876 | 93.7705 | 98.9437 | 78.2708 | 286 | 19 | 281 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | SNP | * | func_cds | het | 99.5132 | 99.8298 | 99.1986 | 22.7101 | 11142 | 19 | 11141 | 90 | 1 | 1.1111 | |
| astatham-gatk | SNP | * | map_l250_m0_e0 | homalt | 97.9920 | 96.9793 | 99.0260 | 91.4528 | 610 | 19 | 610 | 6 | 5 | 83.3333 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5866 | 97.7804 | 99.4062 | 85.3845 | 837 | 19 | 837 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.8256 | 96.4486 | 99.2424 | 73.9001 | 516 | 19 | 524 | 4 | 4 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | segdup | het | 34.4828 | 20.8333 | 100.0000 | 91.2281 | 5 | 19 | 5 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l125_m1_e0 | homalt | 68.2142 | 94.1896 | 53.4687 | 80.5464 | 308 | 19 | 316 | 275 | 253 | 92.0000 | |
| anovak-vg | INDEL | I1_5 | segdup | homalt | 68.8866 | 95.9831 | 53.7209 | 91.7355 | 454 | 19 | 462 | 398 | 376 | 94.4724 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | hetalt | 0.0000 | 34.4828 | 0.0000 | 0.0000 | 10 | 19 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l100_m2_e0 | hetalt | 0.0000 | 36.6667 | 0.0000 | 0.0000 | 11 | 19 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5706 | 99.1399 | 92.2494 | 66.0177 | 2190 | 19 | 2190 | 184 | 181 | 98.3696 | |
| astatham-gatk | INDEL | * | segdup | het | 98.4019 | 98.7040 | 98.1017 | 95.1947 | 1447 | 19 | 1447 | 28 | 2 | 7.1429 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.4086 | 85.9259 | 81.0345 | 77.5629 | 116 | 19 | 94 | 22 | 21 | 95.4545 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.1994 | 99.4197 | 97.0087 | 68.4176 | 3255 | 19 | 3243 | 100 | 97 | 97.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.9371 | 98.3926 | 99.4876 | 28.2475 | 1163 | 19 | 1165 | 6 | 6 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m1_e0 | * | 97.9979 | 98.5800 | 97.4227 | 90.0883 | 1319 | 19 | 1323 | 35 | 7 | 20.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e0 | * | 98.0622 | 98.6506 | 97.4808 | 90.7478 | 1389 | 19 | 1393 | 36 | 7 | 19.4444 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.5857 | 94.5714 | 98.6877 | 35.6419 | 331 | 19 | 376 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8275 | 97.5066 | 98.1506 | 66.5044 | 743 | 19 | 743 | 14 | 8 | 57.1429 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0806 | 99.4197 | 96.7771 | 68.3987 | 3255 | 19 | 3243 | 108 | 105 | 97.2222 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7407 | 99.3048 | 96.2251 | 62.9649 | 2714 | 19 | 2702 | 106 | 102 | 96.2264 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0857 | 99.0613 | 99.1102 | 68.1518 | 2005 | 19 | 2005 | 18 | 4 | 22.2222 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | homalt | 99.5462 | 99.3118 | 99.7817 | 72.6486 | 2742 | 19 | 2742 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2817 | 99.2817 | 99.2817 | 83.4450 | 2626 | 19 | 2626 | 19 | 6 | 31.5789 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7335 | 99.7729 | 97.7156 | 45.5716 | 8347 | 19 | 8341 | 195 | 193 | 98.9744 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 91.7468 | 88.1250 | 95.6790 | 89.0392 | 141 | 19 | 155 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.2980 | 98.3871 | 94.2957 | 66.7441 | 1159 | 19 | 1620 | 98 | 95 | 96.9388 | |
| asubramanian-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 97.0079 | 94.1896 | 100.0000 | 84.1944 | 308 | 19 | 309 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e0 | homalt | 97.1342 | 94.4282 | 100.0000 | 85.3437 | 322 | 19 | 322 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 97.1514 | 94.4606 | 100.0000 | 85.5551 | 324 | 19 | 324 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | * | 91.8129 | 89.2045 | 94.5783 | 94.1487 | 157 | 19 | 157 | 9 | 0 | 0.0000 | |