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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40401-40450 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9754 | 99.9671 | 99.9836 | 54.9478 | 6086 | 2 | 6086 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.1220 | 95.1220 | 95.1220 | 93.7785 | 39 | 2 | 39 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.7831 | 99.5671 | 100.0000 | 29.1217 | 460 | 2 | 460 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 92.3077 | 85.7143 | 100.0000 | 93.3702 | 12 | 2 | 12 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m1_e0 | homalt | 99.5696 | 99.4269 | 99.7126 | 82.3350 | 347 | 2 | 347 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e0 | hetalt | 92.8571 | 86.6667 | 100.0000 | 95.6229 | 13 | 2 | 13 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e0 | homalt | 99.5873 | 99.4505 | 99.7245 | 83.3867 | 362 | 2 | 362 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e1 | hetalt | 92.8571 | 86.6667 | 100.0000 | 95.7377 | 13 | 2 | 13 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e1 | homalt | 99.5962 | 99.4624 | 99.7305 | 83.3707 | 370 | 2 | 370 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m0_e0 | * | 98.4604 | 99.3080 | 97.6271 | 89.5723 | 287 | 2 | 288 | 7 | 1 | 14.2857 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m0_e0 | het | 98.0464 | 99.0099 | 97.1014 | 89.8080 | 200 | 2 | 201 | 6 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m1_e0 | homalt | 99.3407 | 99.1228 | 99.5595 | 84.8667 | 226 | 2 | 226 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l250_m1_e0 | * | 97.9710 | 98.8304 | 97.1264 | 94.1037 | 169 | 2 | 169 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l250_m2_e0 | * | 98.1132 | 98.9130 | 97.3262 | 94.4329 | 182 | 2 | 182 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l250_m2_e1 | * | 98.1233 | 98.9189 | 97.3404 | 94.5285 | 183 | 2 | 183 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | segdup | hetalt | 98.0392 | 96.1538 | 100.0000 | 95.3425 | 50 | 2 | 51 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 96.8750 | 93.9394 | 100.0000 | 63.6364 | 31 | 2 | 32 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m0_e0 | het | 96.6667 | 96.6667 | 96.6667 | 88.9908 | 58 | 2 | 58 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 94.4444 | 89.4737 | 100.0000 | 81.5217 | 17 | 2 | 17 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m1_e0 | homalt | 98.4127 | 96.8750 | 100.0000 | 83.3333 | 62 | 2 | 62 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 84.0909 | 63 | 2 | 63 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m2_e1 | homalt | 98.4848 | 97.0149 | 100.0000 | 84.0686 | 65 | 2 | 65 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l125_m1_e0 | het | 98.4127 | 96.8750 | 100.0000 | 90.4908 | 62 | 2 | 62 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l125_m2_e1 | hetalt | 94.7368 | 90.0000 | 100.0000 | 86.6667 | 18 | 2 | 18 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l150_m2_e1 | * | 98.8095 | 97.6471 | 100.0000 | 90.8891 | 83 | 2 | 83 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | tech_badpromoters | * | 93.7500 | 88.2353 | 100.0000 | 54.5455 | 15 | 2 | 15 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | tech_badpromoters | het | 88.8889 | 80.0000 | 100.0000 | 55.5556 | 8 | 2 | 8 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4350 | 98.8764 | 100.0000 | 79.4632 | 176 | 2 | 176 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.0654 | 98.1481 | 100.0000 | 78.2881 | 106 | 2 | 104 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 57.1429 | 50.0000 | 66.6667 | 89.2857 | 2 | 2 | 2 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.8314 | 95.7447 | 95.9184 | 79.5833 | 45 | 2 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.2963 | 92.8571 | 100.0000 | 60.5634 | 26 | 2 | 28 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1009 | 98.8095 | 99.3939 | 76.4286 | 166 | 2 | 164 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 66.6667 | 50.0000 | 100.0000 | 84.6154 | 2 | 2 | 2 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 0.0000 | 100.0000 | 0 | 2 | 0 | 0 | 0 | ||||
| hfeng-pmm3 | INDEL | I16_PLUS | map_l100_m1_e0 | * | 92.3077 | 92.3077 | 92.3077 | 94.1964 | 24 | 2 | 24 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | map_l100_m2_e0 | * | 90.5660 | 92.3077 | 88.8889 | 94.8177 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | map_l100_m2_e1 | * | 90.5660 | 92.3077 | 88.8889 | 94.8473 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | map_siren | het | 94.9495 | 95.9184 | 94.0000 | 89.6694 | 47 | 2 | 47 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002compoundhet | homalt | 83.8462 | 99.3921 | 72.5055 | 83.0068 | 327 | 2 | 327 | 124 | 123 | 99.1935 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8428 | 99.7906 | 99.8952 | 79.5848 | 953 | 2 | 953 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.8776 | 92.0000 | 95.8333 | 54.7170 | 23 | 2 | 23 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 95.4545 | 91.3043 | 100.0000 | 12.5000 | 21 | 2 | 21 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.3820 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | HG002complexvar | homalt | 98.6971 | 99.8353 | 97.5845 | 54.9183 | 1212 | 2 | 1212 | 30 | 30 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.4426 | 96.6102 | 90.4762 | 76.4045 | 57 | 2 | 57 | 6 | 6 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 98.0392 | 96.1538 | 100.0000 | 60.1562 | 50 | 2 | 51 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.0000 | 91.6667 | 84.6154 | 79.0323 | 22 | 2 | 22 | 4 | 4 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.8716 | 99.0521 | 92.8889 | 67.6259 | 209 | 2 | 209 | 16 | 15 | 93.7500 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.0173 | 99.3569 | 94.7853 | 69.0702 | 309 | 2 | 309 | 17 | 16 | 94.1176 | |