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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25201-25250 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7758 | 98.4234 | 97.1366 | 86.2132 | 437 | 7 | 441 | 13 | 9 | 69.2308 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m1_e0 | * | 75.9428 | 62.2530 | 97.3510 | 93.4867 | 315 | 191 | 441 | 12 | 8 | 66.6667 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m1_e0 | * | 66.7171 | 53.1325 | 89.6341 | 77.6871 | 441 | 389 | 441 | 51 | 46 | 90.1961 | |
| mlin-fermikit | INDEL | * | map_l150_m2_e1 | het | 63.3120 | 47.6190 | 94.4325 | 85.0560 | 440 | 484 | 441 | 26 | 12 | 46.1538 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 78.5332 | 98.1982 | 65.4303 | 85.7535 | 436 | 8 | 441 | 233 | 107 | 45.9227 | |
| ltrigg-rtg1 | INDEL | * | func_cds | * | 99.3231 | 98.8764 | 99.7738 | 35.4745 | 440 | 5 | 441 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.5246 | 91.6667 | 97.5664 | 80.0265 | 440 | 40 | 441 | 11 | 9 | 81.8182 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 82.1159 | 98.1982 | 70.5600 | 84.9325 | 436 | 8 | 441 | 184 | 107 | 58.1522 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 45.2707 | 43.8743 | 46.7588 | 85.7511 | 419 | 536 | 440 | 501 | 11 | 2.1956 | |
| asubramanian-gatk | INDEL | * | func_cds | * | 98.8729 | 98.4270 | 99.3228 | 86.9360 | 438 | 7 | 440 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3228 | 99.3228 | 99.3228 | 34.5643 | 440 | 3 | 440 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | func_cds | * | 98.8729 | 98.4270 | 99.3228 | 93.2232 | 438 | 7 | 440 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2098 | 99.0971 | 99.3228 | 35.3285 | 439 | 4 | 440 | 3 | 2 | 66.6667 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 62.9334 | 53.3333 | 76.7483 | 71.4713 | 440 | 385 | 439 | 133 | 119 | 89.4737 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 62.9334 | 53.3333 | 76.7483 | 71.4713 | 440 | 385 | 439 | 133 | 119 | 89.4737 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4337 | 98.8739 | 100.0000 | 84.6019 | 439 | 5 | 439 | 0 | 0 | ||
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4337 | 98.8739 | 100.0000 | 84.5259 | 439 | 5 | 439 | 0 | 0 | ||
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4337 | 98.8739 | 100.0000 | 85.4007 | 439 | 5 | 439 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.2955 | 91.2500 | 95.4348 | 82.0942 | 438 | 42 | 439 | 21 | 10 | 47.6190 | |
| gduggal-bwavard | INDEL | I1_5 | segdup | homalt | 96.3005 | 93.6575 | 99.0971 | 89.4222 | 443 | 30 | 439 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.3190 | 98.8713 | 97.7728 | 36.2216 | 438 | 5 | 439 | 10 | 4 | 40.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3213 | 98.8739 | 99.7727 | 84.2237 | 439 | 5 | 439 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.2090 | 98.8739 | 99.5465 | 84.4225 | 439 | 5 | 439 | 2 | 1 | 50.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6602 | 99.7743 | 99.5465 | 28.6408 | 442 | 1 | 439 | 2 | 2 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.2750 | 89.1170 | 81.7505 | 62.2628 | 434 | 53 | 439 | 98 | 30 | 30.6122 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3197 | 98.6486 | 100.0000 | 84.5612 | 438 | 6 | 438 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | map_l150_m1_e0 | homalt | 96.1581 | 94.8052 | 97.5501 | 91.6231 | 438 | 24 | 438 | 11 | 8 | 72.7273 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 70.1122 | 60.5452 | 83.2700 | 54.5769 | 422 | 275 | 438 | 88 | 86 | 97.7273 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3197 | 98.6486 | 100.0000 | 84.6046 | 438 | 6 | 438 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3197 | 98.6486 | 100.0000 | 84.5612 | 438 | 6 | 438 | 0 | 0 | ||
| ckim-isaac | INDEL | D16_PLUS | HG002complexvar | hetalt | 71.9738 | 58.7045 | 92.9936 | 55.5660 | 145 | 102 | 438 | 33 | 26 | 78.7879 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3197 | 98.6486 | 100.0000 | 84.6316 | 438 | 6 | 438 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 38.9035 | 36.0279 | 42.2780 | 67.7158 | 361 | 641 | 438 | 598 | 312 | 52.1739 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | homalt | 87.5010 | 81.5443 | 94.3966 | 88.3212 | 433 | 98 | 438 | 26 | 1 | 3.8462 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4325 | 98.8713 | 100.0000 | 31.8818 | 438 | 5 | 438 | 0 | 0 | ||
| qzeng-custom | INDEL | * | func_cds | * | 95.4248 | 98.4270 | 92.6004 | 43.9573 | 438 | 7 | 438 | 35 | 4 | 11.4286 | |
| mlin-fermikit | INDEL | * | func_cds | * | 98.6486 | 98.4270 | 98.8713 | 35.8900 | 438 | 7 | 438 | 5 | 3 | 60.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.7419 | 51.2195 | 100.0000 | 45.5901 | 357 | 340 | 438 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l250_m2_e0 | homalt | 28.0410 | 16.3068 | 100.0000 | 97.5677 | 438 | 2248 | 438 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 93.9683 | 89.7119 | 98.6486 | 88.3311 | 436 | 50 | 438 | 6 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.2072 | 98.6486 | 99.7722 | 84.5803 | 438 | 6 | 438 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.7791 | 28.9773 | 35.1807 | 45.7989 | 357 | 875 | 438 | 807 | 617 | 76.4560 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7457 | 97.5225 | 100.0000 | 84.7096 | 433 | 11 | 437 | 0 | 0 | ||
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 72.8440 | 62.9842 | 86.3636 | 38.2927 | 439 | 258 | 437 | 69 | 65 | 94.2029 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 92.1538 | 87.8543 | 96.8958 | 47.4971 | 217 | 30 | 437 | 14 | 14 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7738 | 99.5485 | 100.0000 | 27.1667 | 441 | 2 | 437 | 0 | 0 | ||
| gduggal-bwaplat | SNP | ti | map_l250_m0_e0 | * | 48.2606 | 31.8978 | 99.0930 | 98.5682 | 437 | 933 | 437 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.9006 | 95.8874 | 100.0000 | 43.1730 | 443 | 19 | 437 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7738 | 99.5485 | 100.0000 | 26.8007 | 441 | 2 | 437 | 0 | 0 | ||
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | het | 84.9655 | 76.8482 | 95.0000 | 94.5186 | 395 | 119 | 437 | 23 | 19 | 82.6087 | |