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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58551-58600 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D6_15 | map_siren | het | 97.8495 | 97.5000 | 98.2014 | 83.8184 | 273 | 7 | 273 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 78.2202 | 78.4416 | 78.0000 | 61.1973 | 302 | 83 | 273 | 77 | 55 | 71.4286 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.9441 | 92.8315 | 99.2727 | 67.4171 | 259 | 20 | 273 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | map_siren | het | 98.5599 | 97.8571 | 99.2727 | 84.3483 | 274 | 6 | 273 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.1365 | 93.1900 | 99.2754 | 67.6056 | 260 | 19 | 274 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_siren | het | 98.2111 | 98.2143 | 98.2079 | 83.3333 | 275 | 5 | 274 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_siren | het | 98.0322 | 97.8571 | 98.2079 | 85.3850 | 274 | 6 | 274 | 5 | 1 | 20.0000 | |
| gduggal-bwavard | INDEL | I1_5 | HG002compoundhet | homalt | 91.3175 | 84.8024 | 98.9170 | 47.1374 | 279 | 50 | 274 | 3 | 1 | 33.3333 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 38.1468 | 23.7733 | 96.4789 | 45.0677 | 281 | 901 | 274 | 10 | 7 | 70.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 17.1893 | 11.5659 | 33.4554 | 78.2586 | 243 | 1858 | 274 | 545 | 283 | 51.9266 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 65.3917 | 49.9065 | 94.8097 | 85.3076 | 267 | 268 | 274 | 15 | 10 | 66.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | map_siren | het | 97.3388 | 98.2143 | 96.4789 | 87.3553 | 275 | 5 | 274 | 10 | 2 | 20.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.0984 | 91.2587 | 99.2754 | 54.6053 | 261 | 25 | 274 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.8810 | 91.7722 | 98.2079 | 71.1479 | 290 | 26 | 274 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_siren | het | 97.6859 | 98.2143 | 97.1631 | 87.7445 | 275 | 5 | 274 | 8 | 2 | 25.0000 | |
| cchapple-custom | INDEL | * | map_l125_m0_e0 | homalt | 97.5089 | 96.4789 | 98.5612 | 87.0215 | 274 | 10 | 274 | 4 | 3 | 75.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.7173 | 98.5185 | 98.9170 | 61.7931 | 266 | 4 | 274 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | map_siren | het | 96.8229 | 98.2143 | 95.4704 | 89.1534 | 275 | 5 | 274 | 13 | 2 | 15.3846 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.2891 | 91.6084 | 99.2780 | 52.0761 | 262 | 24 | 275 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m0_e0 | * | 94.8470 | 96.1938 | 93.5374 | 90.3764 | 278 | 11 | 275 | 19 | 3 | 15.7895 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.3319 | 98.5866 | 94.1781 | 59.8901 | 279 | 4 | 275 | 17 | 17 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.5177 | 93.9068 | 99.2780 | 66.5459 | 262 | 17 | 275 | 2 | 2 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_siren | het | 83.2073 | 98.2143 | 72.1785 | 87.9583 | 275 | 5 | 275 | 106 | 94 | 88.6792 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 88.2468 | 79.8834 | 98.5663 | 50.9666 | 274 | 69 | 275 | 4 | 3 | 75.0000 | |
| gduggal-snapfb | INDEL | * | map_l250_m1_e0 | * | 91.6667 | 90.1639 | 93.2203 | 95.5752 | 275 | 30 | 275 | 20 | 6 | 30.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_siren | het | 93.1960 | 92.8571 | 93.5374 | 77.7104 | 260 | 20 | 275 | 19 | 15 | 78.9474 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.0018 | 97.1731 | 96.8310 | 69.5931 | 275 | 8 | 275 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.8310 | 97.1731 | 96.4912 | 69.5187 | 275 | 8 | 275 | 10 | 10 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | map_siren | * | 93.6968 | 90.1639 | 97.5177 | 81.7829 | 275 | 30 | 275 | 7 | 6 | 85.7143 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.8594 | 97.1731 | 80.1749 | 65.9384 | 275 | 8 | 275 | 68 | 62 | 91.1765 | |
| 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-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.2891 | 91.6084 | 99.2780 | 52.0761 | 262 | 24 | 275 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | homalt | 89.8612 | 94.8097 | 85.4037 | 66.1053 | 274 | 15 | 275 | 47 | 38 | 80.8511 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 88.2468 | 79.8834 | 98.5663 | 50.7937 | 274 | 69 | 275 | 4 | 3 | 75.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.5190 | 93.9068 | 99.2806 | 63.1788 | 262 | 17 | 276 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6672 | 92.3077 | 99.2806 | 52.6405 | 264 | 22 | 276 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 99.6390 | 90.5814 | 0 | 0 | 276 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | ti | map_l100_m2_e1 | hetalt | 99.8192 | 100.0000 | 99.6390 | 65.8025 | 31 | 0 | 276 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.8197 | 96.7391 | 98.9247 | 90.8824 | 267 | 9 | 276 | 3 | 2 | 66.6667 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 86.9474 | 92.0408 | 82.3881 | 83.0380 | 451 | 39 | 276 | 59 | 57 | 96.6102 | |
| ckim-dragen | INDEL | * | map_l125_m0_e0 | homalt | 97.3588 | 97.5352 | 97.1831 | 87.5874 | 277 | 7 | 276 | 8 | 5 | 62.5000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e1 | homalt | 94.8670 | 91.1290 | 98.9247 | 84.2195 | 226 | 22 | 276 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.8588 | 70.1897 | 92.6174 | 71.9397 | 259 | 110 | 276 | 22 | 21 | 95.4545 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m0_e0 | * | 94.5123 | 95.1557 | 93.8776 | 90.9427 | 275 | 14 | 276 | 18 | 5 | 27.7778 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | homalt | 46.8802 | 63.5258 | 37.1467 | 83.7347 | 209 | 120 | 276 | 467 | 330 | 70.6638 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5017 | 97.5265 | 93.5593 | 68.9474 | 276 | 7 | 276 | 19 | 19 | 100.0000 | |
| ckim-isaac | SNP | * | map_l250_m0_e0 | homalt | 60.9272 | 43.8792 | 99.6390 | 88.3516 | 276 | 353 | 276 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 87.8383 | 97.0370 | 80.2326 | 59.6717 | 393 | 12 | 276 | 68 | 64 | 94.1176 | |
| asubramanian-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 92.4426 | 88.7097 | 96.5035 | 91.8681 | 275 | 35 | 276 | 10 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | * | 94.0200 | 90.1639 | 98.2206 | 86.0753 | 275 | 30 | 276 | 5 | 3 | 60.0000 | |