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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61151-61200 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.1875 | 100.0000 | 85.5072 | 76.2069 | 59 | 0 | 59 | 10 | 10 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9214 | 99.9010 | 99.9417 | 55.7201 | 17160 | 17 | 17156 | 10 | 8 | 80.0000 | |
| dgrover-gatk | SNP | ti | map_l125_m1_e0 | homalt | 99.6414 | 99.3753 | 99.9090 | 63.5537 | 10976 | 69 | 10976 | 10 | 8 | 80.0000 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e0 | homalt | 99.6336 | 99.3573 | 99.9115 | 66.1532 | 11285 | 73 | 11285 | 10 | 8 | 80.0000 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | homalt | 99.6368 | 99.3629 | 99.9122 | 66.1709 | 11385 | 73 | 11385 | 10 | 8 | 80.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7015 | 99.8620 | 99.5415 | 64.0336 | 2171 | 3 | 2171 | 10 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5325 | 99.7837 | 99.2826 | 64.9925 | 1384 | 3 | 1384 | 10 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7972 | 99.8841 | 99.7104 | 37.7838 | 3446 | 4 | 3443 | 10 | 2 | 20.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7664 | 100.0000 | 99.5338 | 39.4410 | 2138 | 0 | 2135 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.9922 | 92.1495 | 98.0159 | 72.8155 | 493 | 42 | 494 | 10 | 10 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m0_e0 | * | 97.8809 | 97.7823 | 97.9798 | 88.1437 | 485 | 11 | 485 | 10 | 3 | 30.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.6182 | 51.4052 | 98.7700 | 39.3736 | 878 | 830 | 803 | 10 | 9 | 90.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 78.1818 | 75.4386 | 81.1321 | 99.3693 | 43 | 14 | 43 | 10 | 4 | 40.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 76.9231 | 90.9091 | 66.6667 | 80.1325 | 20 | 2 | 20 | 10 | 7 | 70.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.1147 | 86.7089 | 98.2394 | 38.2609 | 548 | 84 | 558 | 10 | 9 | 90.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.2767 | 81.7073 | 87.0130 | 73.5395 | 67 | 15 | 67 | 10 | 10 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.5461 | 98.1405 | 98.9551 | 62.1889 | 950 | 18 | 947 | 10 | 7 | 70.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.9809 | 98.0851 | 97.8769 | 63.9633 | 461 | 9 | 461 | 10 | 5 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5825 | 98.4556 | 98.7097 | 83.9478 | 765 | 12 | 765 | 10 | 1 | 10.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7342 | 98.6747 | 98.7937 | 86.0391 | 819 | 11 | 819 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e0 | * | 98.7150 | 98.5998 | 98.8304 | 87.2578 | 845 | 12 | 845 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | * | 98.7342 | 98.6207 | 98.8479 | 87.4221 | 858 | 12 | 858 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 87.1538 | 78.6792 | 97.6744 | 47.9419 | 417 | 113 | 420 | 10 | 9 | 90.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.3636 | 87.5000 | 67.7419 | 76.6917 | 21 | 3 | 21 | 10 | 9 | 90.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7968 | 99.6842 | 99.9096 | 55.6842 | 11049 | 35 | 11049 | 10 | 7 | 70.0000 | |
| egarrison-hhga | SNP | * | map_l150_m1_e0 | homalt | 99.7690 | 99.6274 | 99.9110 | 70.9129 | 11231 | 42 | 11231 | 10 | 10 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | homalt | 99.7775 | 99.6410 | 99.9143 | 73.3265 | 11657 | 42 | 11657 | 10 | 10 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | homalt | 99.7799 | 99.6449 | 99.9152 | 73.3597 | 11785 | 42 | 11785 | 10 | 10 | 100.0000 | |
| egarrison-hhga | SNP | ti | func_cds | * | 99.9456 | 99.9637 | 99.9275 | 22.3817 | 13782 | 5 | 13782 | 10 | 0 | 0.0000 | |
| egarrison-hhga | SNP | ti | func_cds | het | 99.9236 | 99.9647 | 99.8825 | 23.1721 | 8501 | 3 | 8501 | 10 | 0 | 0.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5478 | 99.4890 | 99.6066 | 49.0683 | 2531 | 13 | 2532 | 10 | 2 | 20.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.5405 | 88.1579 | 93.0556 | 89.6552 | 134 | 18 | 134 | 10 | 5 | 50.0000 | |
| egarrison-hhga | SNP | tv | map_siren | homalt | 99.8636 | 99.7854 | 99.9419 | 55.8765 | 17203 | 37 | 17203 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 73.2771 | 59.8485 | 94.4751 | 88.1311 | 79 | 53 | 171 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 59.5745 | 50.0000 | 73.6842 | 74.3243 | 25 | 25 | 28 | 10 | 7 | 70.0000 | |
| eyeh-varpipe | INDEL | * | map_l250_m1_e0 | het | 96.2782 | 96.3158 | 96.2406 | 94.6853 | 183 | 7 | 256 | 10 | 4 | 40.0000 | |
| eyeh-varpipe | INDEL | C16_PLUS | HG002compoundhet | * | 0.0000 | 0.0000 | 37.5000 | 90.6977 | 0 | 0 | 6 | 10 | 8 | 80.0000 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 54.5455 | 93.9227 | 0 | 0 | 12 | 10 | 2 | 20.0000 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 50.0000 | 94.5946 | 0 | 0 | 10 | 10 | 7 | 70.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7994 | 99.7475 | 99.8514 | 49.4629 | 6716 | 17 | 6718 | 10 | 6 | 60.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m1_e0 | het | 95.2880 | 95.7895 | 94.7917 | 96.7022 | 182 | 8 | 182 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | het | 95.7346 | 96.1905 | 95.2830 | 96.8183 | 202 | 8 | 202 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e1 | het | 95.7547 | 96.2085 | 95.3052 | 96.8873 | 203 | 8 | 203 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.2777 | 97.5124 | 95.0739 | 88.6465 | 196 | 5 | 193 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1693 | 98.6207 | 97.7221 | 69.8074 | 429 | 6 | 429 | 10 | 4 | 40.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4819 | 99.6109 | 99.3532 | 78.1854 | 1536 | 6 | 1536 | 10 | 5 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.4723 | 80.0551 | 98.8675 | 51.9325 | 871 | 217 | 873 | 10 | 5 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 56.7073 | 45.5882 | 75.0000 | 86.4865 | 31 | 37 | 30 | 10 | 5 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.4240 | 70.4268 | 96.4912 | 53.1250 | 231 | 97 | 275 | 10 | 8 | 80.0000 | |
| ckim-isaac | INDEL | D16_PLUS | map_siren | het | 29.1262 | 19.2308 | 60.0000 | 92.2840 | 15 | 63 | 15 | 10 | 5 | 50.0000 | |