PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51351-51400 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4749 | 99.2317 | 99.7192 | 49.7413 | 4262 | 33 | 4262 | 12 | 1 | 8.3333 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2155 | 98.8831 | 99.5502 | 52.7537 | 2656 | 30 | 2656 | 12 | 1 | 8.3333 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.8060 | 99.8383 | 99.7738 | 56.4379 | 6174 | 10 | 6174 | 14 | 1 | 7.1429 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7204 | 99.7965 | 99.6444 | 58.5971 | 3923 | 8 | 3923 | 14 | 1 | 7.1429 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4189 | 98.9485 | 99.8938 | 85.6381 | 941 | 10 | 941 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.6471 | 99.4131 | 99.8821 | 84.7756 | 847 | 5 | 847 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.8081 | 99.6424 | 99.9744 | 76.1009 | 3901 | 14 | 3901 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8406 | 99.7106 | 99.9710 | 62.7500 | 3445 | 10 | 3445 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1381 | 99.6239 | 98.6571 | 45.3917 | 11390 | 43 | 11387 | 155 | 1 | 0.6452 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8292 | 99.6738 | 99.9851 | 35.1779 | 6723 | 22 | 6723 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.0289 | 93.0070 | 99.2537 | 92.6856 | 133 | 10 | 133 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.2963 | 95.1220 | 97.5000 | 92.3225 | 39 | 2 | 39 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m1_e0 | hetalt | 80.0000 | 68.2927 | 96.5517 | 89.6797 | 28 | 13 | 28 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | hetalt | 80.5556 | 69.0476 | 96.6667 | 90.4762 | 29 | 13 | 29 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | hetalt | 81.0811 | 69.7674 | 96.7742 | 90.1899 | 30 | 13 | 30 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m0_e0 | homalt | 62.1444 | 45.1510 | 99.6491 | 95.8315 | 284 | 345 | 284 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m1_e0 | homalt | 62.3079 | 45.2700 | 99.9104 | 92.6564 | 1115 | 1348 | 1115 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | homalt | 63.6387 | 46.6865 | 99.9203 | 93.0743 | 1254 | 1432 | 1254 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e1 | homalt | 63.8458 | 46.9095 | 99.9216 | 93.0622 | 1275 | 1443 | 1275 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | func_cds | * | 99.5302 | 99.8912 | 99.1718 | 29.3312 | 13772 | 15 | 13770 | 115 | 1 | 0.8696 | |
| jmaeng-gatk | SNP | ti | func_cds | het | 99.2988 | 99.9412 | 98.6647 | 33.9419 | 8499 | 5 | 8497 | 115 | 1 | 0.8696 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4582 | 99.2565 | 99.6607 | 48.9520 | 2937 | 22 | 2937 | 10 | 1 | 10.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2061 | 98.9623 | 99.4512 | 52.1534 | 1812 | 19 | 1812 | 10 | 1 | 10.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.8006 | 99.8255 | 99.7757 | 49.8187 | 4004 | 7 | 4004 | 9 | 1 | 11.1111 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7054 | 99.7642 | 99.6466 | 52.8246 | 2538 | 6 | 2538 | 9 | 1 | 11.1111 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7064 | 96.3801 | 99.0698 | 91.1194 | 213 | 8 | 213 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6744 | 96.7105 | 98.6577 | 91.3221 | 147 | 5 | 147 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7660 | 99.6556 | 99.8767 | 49.4516 | 4051 | 14 | 4051 | 5 | 1 | 20.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4232 | 99.6886 | 99.1593 | 46.1734 | 6723 | 21 | 6723 | 57 | 1 | 1.7544 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8493 | 99.7241 | 99.9749 | 34.2862 | 3976 | 11 | 3976 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m1_e0 | hetalt | 82.3529 | 72.4138 | 95.4545 | 87.4286 | 21 | 8 | 21 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m2_e0 | hetalt | 83.0189 | 73.3333 | 95.6522 | 88.2653 | 22 | 8 | 22 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 83.6364 | 74.1935 | 95.8333 | 87.8173 | 23 | 8 | 23 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m0_e0 | homalt | 70.0419 | 53.9078 | 99.9587 | 78.1072 | 2421 | 2070 | 2421 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m0_e0 | homalt | 66.0199 | 49.2937 | 99.9266 | 83.9216 | 1361 | 1400 | 1361 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m1_e0 | homalt | 72.2900 | 56.6125 | 99.9759 | 78.8887 | 4148 | 3179 | 4148 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e0 | homalt | 73.2296 | 57.7731 | 99.9773 | 80.4374 | 4400 | 3216 | 4400 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e1 | homalt | 73.3394 | 57.9098 | 99.9776 | 80.4132 | 4455 | 3238 | 4455 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m2_e0 | hetalt | 91.3793 | 84.8000 | 99.0654 | 91.6341 | 106 | 19 | 106 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m2_e1 | hetalt | 90.9869 | 84.0909 | 99.1150 | 91.3476 | 111 | 21 | 112 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m1_e0 | * | 94.3636 | 90.4918 | 98.5816 | 93.0781 | 276 | 29 | 278 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m1_e0 | homalt | 99.0909 | 100.0000 | 98.1982 | 94.0290 | 109 | 0 | 109 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | * | 94.8253 | 91.2387 | 98.7055 | 93.5812 | 302 | 29 | 305 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | homalt | 99.1379 | 100.0000 | 98.2906 | 94.5808 | 115 | 0 | 115 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e1 | * | 94.8576 | 91.2913 | 98.7138 | 93.7286 | 304 | 29 | 307 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e1 | homalt | 99.1453 | 100.0000 | 98.3051 | 94.6942 | 116 | 0 | 116 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | C16_PLUS | * | hetalt | 0.0000 | 0.0000 | 96.5517 | 94.6593 | 0 | 0 | 28 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C16_PLUS | * | homalt | 0.0000 | 0.0000 | 94.7368 | 95.5504 | 0 | 0 | 18 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C16_PLUS | HG002complexvar | het | 0.0000 | 0.0000 | 95.4545 | 90.4762 | 0 | 0 | 21 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C16_PLUS | HG002complexvar | hetalt | 0.0000 | 0.0000 | 96.2963 | 87.6147 | 0 | 0 | 26 | 1 | 1 | 100.0000 | |