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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22651-22700 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8482 | 97.7227 | 100.0000 | 32.9973 | 1459 | 34 | 1462 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I16_PLUS | HG002complexvar | * | 98.3417 | 97.4026 | 99.2991 | 67.2031 | 1275 | 34 | 1275 | 9 | 8 | 88.8889 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.8897 | 76.2238 | 90.8333 | 92.9947 | 109 | 34 | 109 | 11 | 1 | 9.0909 | |
| ckim-isaac | INDEL | I6_15 | map_siren | hetalt | 68.4843 | 52.7778 | 97.5000 | 75.4601 | 38 | 34 | 39 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 65.6716 | 66.6667 | 64.7059 | 89.5246 | 68 | 34 | 77 | 42 | 4 | 9.5238 | |
| ckim-isaac | SNP | tv | func_cds | het | 99.3184 | 98.7204 | 99.9238 | 24.8927 | 2623 | 34 | 2623 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8744 | 97.2930 | 98.4628 | 79.3759 | 1222 | 34 | 1217 | 19 | 7 | 36.8421 | |
| ckim-vqsr | INDEL | D1_5 | map_l125_m2_e1 | het | 95.6493 | 95.5844 | 95.7143 | 92.3154 | 736 | 34 | 737 | 33 | 3 | 9.0909 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2237 | 99.4958 | 98.9530 | 45.8387 | 6710 | 34 | 6710 | 71 | 1 | 1.4085 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9231 | 96.3983 | 99.4970 | 32.4728 | 910 | 34 | 989 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5152 | 99.4428 | 99.5877 | 78.3498 | 6068 | 34 | 6039 | 25 | 11 | 44.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.6460 | 99.6990 | 99.5931 | 55.9882 | 11262 | 34 | 11258 | 46 | 37 | 80.4348 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.2797 | 92.2197 | 90.3587 | 46.2002 | 403 | 34 | 403 | 43 | 19 | 44.1860 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.9033 | 83.4146 | 78.5388 | 83.2569 | 171 | 34 | 172 | 47 | 28 | 59.5745 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 70.1987 | 60.9195 | 82.8125 | 80.6647 | 53 | 34 | 53 | 11 | 8 | 72.7273 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.9033 | 83.4146 | 78.5388 | 83.2569 | 171 | 34 | 172 | 47 | 28 | 59.5745 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 93.9237 | 90.0875 | 98.1013 | 46.7116 | 309 | 34 | 310 | 6 | 1 | 16.6667 | |
| ckim-isaac | INDEL | D6_15 | map_l150_m2_e0 | het | 40.6780 | 26.0870 | 92.3077 | 96.5333 | 12 | 34 | 12 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l150_m2_e1 | het | 42.6230 | 27.6596 | 92.8571 | 96.3542 | 13 | 34 | 13 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_siren | * | 99.0333 | 98.8686 | 99.1987 | 80.5885 | 2971 | 34 | 2971 | 24 | 6 | 25.0000 | |
| egarrison-hhga | SNP | ti | map_l250_m0_e0 | het | 97.7729 | 96.3597 | 99.2282 | 93.4065 | 900 | 34 | 900 | 7 | 1 | 14.2857 | |
| egarrison-hhga | SNP | tv | segdup | * | 99.5315 | 99.6015 | 99.4616 | 90.4428 | 8498 | 34 | 8498 | 46 | 15 | 32.6087 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.1764 | 97.4871 | 98.8756 | 71.7313 | 1319 | 34 | 1319 | 15 | 8 | 53.3333 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 87.8953 | 92.2197 | 83.9583 | 47.5410 | 403 | 34 | 403 | 77 | 45 | 58.4416 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 73.7885 | 60.4651 | 94.6429 | 73.7089 | 52 | 34 | 53 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 70.1987 | 60.9195 | 82.8125 | 82.7957 | 53 | 34 | 53 | 11 | 5 | 45.4545 | |
| ndellapenna-hhga | SNP | tv | map_l250_m0_e0 | * | 97.2074 | 95.5556 | 98.9175 | 91.4259 | 731 | 34 | 731 | 8 | 4 | 50.0000 | |
| ndellapenna-hhga | SNP | tv | segdup | het | 99.3381 | 99.3569 | 99.3193 | 90.2972 | 5253 | 34 | 5253 | 36 | 2 | 5.5556 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.9882 | 97.7573 | 96.2312 | 67.1549 | 1482 | 34 | 1532 | 60 | 2 | 3.3333 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 58.9928 | 54.6667 | 64.0625 | 54.2857 | 41 | 34 | 41 | 23 | 22 | 95.6522 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.2407 | 74.8148 | 93.8053 | 65.0155 | 101 | 34 | 106 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m1_e0 | * | 98.0469 | 96.8750 | 99.2474 | 78.8205 | 1054 | 34 | 1055 | 8 | 1 | 12.5000 | |
| qzeng-custom | SNP | tv | segdup | homalt | 99.1318 | 98.9500 | 99.3142 | 89.4844 | 3204 | 34 | 3186 | 22 | 21 | 95.4545 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e1 | het | 96.9025 | 96.3203 | 97.4918 | 88.7346 | 890 | 34 | 894 | 23 | 2 | 8.6957 | |
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e1 | * | 68.1223 | 60.0000 | 78.7879 | 86.7735 | 51 | 34 | 52 | 14 | 10 | 71.4286 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 67.5878 | 77.1812 | 60.1156 | 69.6491 | 115 | 34 | 104 | 69 | 68 | 98.5507 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 74.3169 | 66.6667 | 83.9506 | 94.3906 | 68 | 34 | 68 | 13 | 3 | 23.0769 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 80.4826 | 84.6154 | 76.7347 | 91.5952 | 187 | 34 | 188 | 57 | 31 | 54.3860 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | hetalt | 75.5556 | 60.7143 | 100.0000 | 88.1119 | 51 | 33 | 51 | 0 | 0 | ||
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e0 | * | 67.7170 | 59.7561 | 78.1250 | 86.7769 | 49 | 33 | 50 | 14 | 10 | 71.4286 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m0_e0 | homalt | 60.1770 | 50.7463 | 73.9130 | 82.8358 | 34 | 33 | 34 | 12 | 11 | 91.6667 | |
| mlin-fermikit | INDEL | I1_5 | map_siren | hetalt | 82.7225 | 70.5357 | 100.0000 | 83.1169 | 79 | 33 | 78 | 0 | 0 | ||
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3026 | 99.5107 | 97.1234 | 41.8851 | 6712 | 33 | 6719 | 199 | 180 | 90.4523 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.5727 | 97.6793 | 99.4826 | 83.5502 | 1389 | 33 | 1346 | 7 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0022 | 98.7524 | 97.2633 | 81.0644 | 2612 | 33 | 2630 | 74 | 2 | 2.7027 | |
| ltrigg-rtg2 | SNP | tv | segdup | * | 98.9872 | 99.6132 | 98.3690 | 88.4663 | 8499 | 33 | 8504 | 141 | 21 | 14.8936 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.1751 | 86.5854 | 87.7729 | 84.1083 | 213 | 33 | 201 | 28 | 14 | 50.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.1073 | 88.5417 | 91.7293 | 71.7322 | 255 | 33 | 244 | 22 | 12 | 54.5455 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | homalt | 99.5215 | 99.1930 | 99.8523 | 72.7346 | 4056 | 33 | 4056 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.0492 | 67.3267 | 95.7143 | 92.4812 | 68 | 33 | 67 | 3 | 3 | 100.0000 | |