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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20151-20200 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 83.0702 | 98.1137 | 72.0266 | 52.1291 | 3589 | 69 | 3579 | 1390 | 1276 | 91.7986 | |
| eyeh-varpipe | INDEL | I1_5 | map_l150_m0_e0 | het | 97.5684 | 98.1132 | 97.0297 | 89.2267 | 104 | 2 | 196 | 6 | 3 | 50.0000 | |
| gduggal-snapfb | INDEL | D1_5 | func_cds | * | 98.4227 | 98.1132 | 98.7342 | 40.6015 | 156 | 3 | 156 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0476 | 98.1132 | 100.0000 | 76.0369 | 52 | 1 | 52 | 0 | 0 | ||
| ckim-dragen | INDEL | * | map_l250_m0_e0 | het | 90.4348 | 98.1132 | 83.8710 | 97.8344 | 52 | 1 | 52 | 10 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8351 | 98.1132 | 99.5677 | 73.2460 | 728 | 14 | 691 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m0_e0 | het | 93.6937 | 98.1132 | 89.6552 | 95.7571 | 104 | 2 | 104 | 12 | 3 | 25.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m0_e0 | het | 85.2218 | 98.1132 | 75.3247 | 93.9718 | 104 | 2 | 174 | 57 | 14 | 24.5614 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e1 | homalt | 98.7101 | 98.1132 | 99.3144 | 75.8171 | 4056 | 78 | 4056 | 28 | 15 | 53.5714 | |
| hfeng-pmm3 | INDEL | * | map_l250_m0_e0 | het | 92.8571 | 98.1132 | 88.1356 | 97.2861 | 52 | 1 | 52 | 7 | 1 | 14.2857 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e1 | * | 96.6186 | 98.1124 | 95.1697 | 91.5159 | 2183 | 42 | 2187 | 111 | 11 | 9.9099 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.0190 | 98.1121 | 99.9429 | 58.3888 | 1715 | 33 | 1750 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | * | 98.5659 | 98.1119 | 99.0241 | 34.3630 | 17148 | 330 | 17148 | 169 | 140 | 82.8402 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7659 | 98.1114 | 99.4293 | 42.4615 | 4000 | 77 | 4007 | 23 | 16 | 69.5652 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6655 | 98.1110 | 99.2262 | 52.5551 | 14491 | 279 | 14491 | 113 | 109 | 96.4602 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.4522 | 98.1108 | 75.6868 | 87.8606 | 779 | 15 | 551 | 177 | 16 | 9.0396 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7380 | 98.1108 | 99.3732 | 66.6039 | 4674 | 90 | 4756 | 30 | 7 | 23.3333 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9025 | 98.1098 | 99.7081 | 39.8904 | 2751 | 53 | 2733 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8701 | 98.1095 | 99.6426 | 59.5927 | 10898 | 210 | 10873 | 39 | 20 | 51.2821 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.8473 | 98.1095 | 99.5964 | 63.8980 | 986 | 19 | 987 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.4596 | 98.1094 | 87.4251 | 55.1844 | 9341 | 180 | 9337 | 1343 | 1337 | 99.5532 | |
| jlack-gatk | INDEL | D6_15 | HG002complexvar | het | 98.1096 | 98.1090 | 98.1101 | 59.2917 | 3061 | 59 | 3011 | 58 | 40 | 68.9655 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e0 | het | 95.4195 | 98.1084 | 92.8741 | 89.6484 | 778 | 15 | 782 | 60 | 4 | 6.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e0 | het | 98.7326 | 98.1084 | 99.3647 | 83.4872 | 778 | 15 | 782 | 5 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e0 | het | 96.8975 | 98.1084 | 95.7160 | 90.3622 | 778 | 15 | 782 | 35 | 1 | 2.8571 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e0 | * | 98.9478 | 98.1084 | 99.8017 | 69.1640 | 20124 | 388 | 20128 | 40 | 16 | 40.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8871 | 98.1073 | 99.6795 | 84.5007 | 933 | 18 | 933 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e1 | het | 98.2268 | 98.1073 | 98.3466 | 82.2535 | 1244 | 24 | 1487 | 25 | 8 | 32.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e1 | het | 98.2622 | 98.1073 | 98.4177 | 90.7331 | 311 | 6 | 311 | 5 | 1 | 20.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m2_e1 | het | 97.0706 | 98.1073 | 96.0557 | 86.5634 | 1244 | 24 | 1242 | 51 | 4 | 7.8431 | |
| ltrigg-rtg2 | SNP | * | map_l125_m1_e0 | * | 98.9740 | 98.1071 | 99.8563 | 58.5564 | 44469 | 858 | 44470 | 64 | 15 | 23.4375 | |
| asubramanian-gatk | SNP | * | * | het | 98.9725 | 98.1066 | 99.8538 | 23.0377 | 1838113 | 35474 | 1837999 | 2691 | 109 | 4.0505 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | * | 98.9386 | 98.1062 | 99.7853 | 68.9443 | 31600 | 610 | 31606 | 68 | 22 | 32.3529 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | het | 94.3634 | 98.1060 | 90.8959 | 79.1108 | 15125 | 292 | 15076 | 1510 | 87 | 5.7616 | |
| jli-custom | SNP | * | map_l150_m0_e0 | * | 98.7204 | 98.1051 | 99.3435 | 75.0933 | 11804 | 228 | 11804 | 78 | 29 | 37.1795 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | * | 94.8167 | 98.1046 | 91.7420 | 86.3569 | 7712 | 149 | 7710 | 694 | 68 | 9.7983 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.7368 | 98.1043 | 91.5929 | 67.5287 | 207 | 4 | 207 | 19 | 18 | 94.7368 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7317 | 98.1043 | 79.3427 | 59.5442 | 207 | 4 | 338 | 88 | 87 | 98.8636 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.5602 | 98.1043 | 80.7085 | 72.3823 | 1656 | 32 | 1686 | 403 | 136 | 33.7469 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.0431 | 98.1043 | 100.0000 | 47.8589 | 207 | 4 | 207 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.6387 | 98.1030 | 99.1803 | 79.0977 | 362 | 7 | 363 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1886 | 98.1028 | 98.2745 | 88.1406 | 1241 | 24 | 1253 | 22 | 8 | 36.3636 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9660 | 98.1027 | 97.8297 | 69.4907 | 1758 | 34 | 1758 | 39 | 30 | 76.9231 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5426 | 98.1027 | 98.9865 | 64.0849 | 1758 | 34 | 1758 | 18 | 14 | 77.7778 | |
| jmaeng-gatk | INDEL | * | map_l125_m1_e0 | * | 96.6159 | 98.1016 | 95.1746 | 90.8498 | 2067 | 40 | 2071 | 105 | 11 | 10.4762 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7204 | 98.1014 | 99.3473 | 45.8867 | 3617 | 70 | 3653 | 24 | 22 | 91.6667 | |
| rpoplin-dv42 | SNP | ti | map_l250_m1_e0 | * | 98.4440 | 98.1000 | 98.7904 | 87.6879 | 4492 | 87 | 4492 | 55 | 36 | 65.4545 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m2_e0 | * | 98.5327 | 98.0994 | 98.9698 | 83.9986 | 1342 | 26 | 1345 | 14 | 7 | 50.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |