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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21551-21600 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8285 | 93.5953 | 98.1707 | 81.2678 | 643 | 44 | 644 | 12 | 6 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7719 | 98.5989 | 98.9455 | 64.4153 | 563 | 8 | 563 | 6 | 6 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2669 | 96.0317 | 98.5342 | 65.6983 | 605 | 25 | 605 | 9 | 6 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3594 | 99.1723 | 99.5472 | 71.1298 | 2636 | 22 | 2638 | 12 | 6 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | * | 96.8806 | 98.3570 | 95.4480 | 86.8027 | 1317 | 22 | 1321 | 63 | 6 | 9.5238 | |
| jlack-gatk | INDEL | I6_15 | * | hetalt | 94.0319 | 88.8083 | 99.9084 | 39.1561 | 7594 | 957 | 7635 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.7064 | 98.6111 | 96.8182 | 66.6667 | 213 | 3 | 213 | 7 | 6 | 85.7143 | |
| jlack-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8648 | 99.9188 | 30.3225 | 7384 | 10 | 7384 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | homalt | 98.6081 | 97.5009 | 99.7406 | 73.6452 | 2692 | 69 | 2692 | 7 | 6 | 85.7143 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8910 | 99.8415 | 99.9405 | 60.8743 | 10081 | 16 | 10081 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6673 | 99.4468 | 99.8889 | 71.7685 | 5393 | 30 | 5393 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6673 | 99.4468 | 99.8889 | 71.7685 | 5393 | 30 | 5393 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.0943 | 98.4288 | 99.7688 | 70.0054 | 3884 | 62 | 3884 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.1124 | 98.4570 | 99.7766 | 72.3207 | 4020 | 63 | 4020 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | homalt | 99.1112 | 98.4519 | 99.7794 | 72.2800 | 4070 | 64 | 4070 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | segdup | homalt | 99.8611 | 99.9074 | 99.8149 | 89.7982 | 3235 | 3 | 3235 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5407 | 96.4172 | 98.6907 | 74.9539 | 1211 | 45 | 1206 | 16 | 6 | 37.5000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.3074 | 94.9664 | 99.7667 | 39.5535 | 2547 | 135 | 2566 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.1996 | 94.1441 | 96.2791 | 59.2803 | 209 | 13 | 207 | 8 | 6 | 75.0000 | |
| jli-custom | INDEL | * | map_l100_m1_e0 | homalt | 99.1850 | 99.1850 | 99.1850 | 82.2765 | 1217 | 10 | 1217 | 10 | 6 | 60.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | homalt | 99.1284 | 99.2070 | 99.0499 | 83.3333 | 1251 | 10 | 1251 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | homalt | 99.1420 | 99.2194 | 99.0647 | 83.4066 | 1271 | 10 | 1271 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | * | 97.8989 | 97.7324 | 98.0660 | 88.3592 | 862 | 20 | 862 | 17 | 6 | 35.2941 | |
| jli-custom | INDEL | * | map_siren | het | 98.8982 | 98.5359 | 99.2631 | 80.2992 | 4442 | 66 | 4445 | 33 | 6 | 18.1818 | |
| jli-custom | INDEL | * | segdup | homalt | 99.4802 | 99.6875 | 99.2739 | 93.3014 | 957 | 3 | 957 | 7 | 6 | 85.7143 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9312 | 99.9214 | 99.9410 | 54.0442 | 10170 | 8 | 10170 | 6 | 6 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_siren | * | 99.1528 | 99.3483 | 98.9580 | 80.2591 | 3506 | 23 | 3514 | 37 | 6 | 16.2162 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8226 | 97.8845 | 99.7788 | 48.7459 | 3609 | 78 | 3609 | 8 | 6 | 75.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | hetalt | 95.9205 | 92.4214 | 99.6950 | 58.3968 | 1939 | 159 | 1961 | 6 | 6 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.7636 | 100.0000 | 95.6250 | 77.4648 | 153 | 0 | 153 | 7 | 6 | 85.7143 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8615 | 99.7820 | 99.9410 | 72.3104 | 16938 | 37 | 16938 | 10 | 6 | 60.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8615 | 99.7820 | 99.9410 | 72.3104 | 16938 | 37 | 16938 | 10 | 6 | 60.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9381 | 99.9059 | 99.9703 | 56.7400 | 20180 | 19 | 20180 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4982 | 97.1110 | 99.9257 | 65.7528 | 9412 | 280 | 9412 | 7 | 6 | 85.7143 | |
| hfeng-pmm1 | SNP | * | map_l250_m1_e0 | homalt | 99.4527 | 99.5940 | 99.3117 | 86.9979 | 2453 | 10 | 2453 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e0 | homalt | 99.4794 | 99.5905 | 99.3685 | 87.8799 | 2675 | 11 | 2675 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | homalt | 99.4855 | 99.5953 | 99.3759 | 87.9341 | 2707 | 11 | 2707 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | ti | HG002compoundhet | homalt | 99.9392 | 99.9594 | 99.9189 | 30.5967 | 7391 | 3 | 7391 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l100_m0_e0 | homalt | 99.7619 | 99.7170 | 99.8069 | 63.0178 | 7752 | 22 | 7752 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | homalt | 99.7748 | 99.7543 | 99.7952 | 71.0227 | 7309 | 18 | 7309 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e0 | homalt | 99.7833 | 99.7637 | 99.8030 | 73.2106 | 7598 | 18 | 7598 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e1 | homalt | 99.7855 | 99.7660 | 99.8049 | 73.2531 | 7675 | 18 | 7675 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6241 | 97.4259 | 99.8523 | 63.8155 | 4731 | 125 | 4731 | 7 | 6 | 85.7143 | |
| hfeng-pmm1 | SNP | tv | map_l150_m0_e0 | * | 99.0281 | 98.8740 | 99.1827 | 80.1043 | 4127 | 47 | 4126 | 34 | 6 | 17.6471 | |
| hfeng-pmm1 | SNP | tv | map_l250_m1_e0 | * | 98.5782 | 98.2244 | 98.9346 | 87.7185 | 2600 | 47 | 2600 | 28 | 6 | 21.4286 | |
| hfeng-pmm1 | SNP | tv | segdup | * | 99.7305 | 99.7773 | 99.6837 | 90.5181 | 8513 | 19 | 8509 | 27 | 6 | 22.2222 | |
| hfeng-pmm1 | SNP | tv | segdup | homalt | 99.8765 | 99.9382 | 99.8149 | 90.2264 | 3236 | 2 | 3236 | 6 | 6 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8239 | 96.0191 | 97.6423 | 76.7662 | 1206 | 50 | 1201 | 29 | 6 | 20.6897 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.7385 | 93.7300 | 99.9465 | 31.9578 | 12901 | 863 | 13085 | 7 | 6 | 85.7143 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7231 | 93.7001 | 99.9475 | 34.6971 | 13148 | 884 | 13337 | 7 | 6 | 85.7143 | |