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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51301-51350 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.9982 | 90.5081 | 99.9572 | 32.8251 | 2298 | 241 | 2334 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1956 | 90.5120 | 98.1916 | 59.9330 | 3606 | 378 | 3638 | 67 | 32 | 47.7612 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 53.3749 | 90.5160 | 37.8458 | 56.6360 | 649 | 68 | 643 | 1056 | 1003 | 94.9811 | |
| anovak-vg | SNP | * | map_l125_m2_e1 | het | 77.5666 | 90.5162 | 67.8585 | 78.1432 | 26829 | 2811 | 26551 | 12576 | 2737 | 21.7637 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3002 | 90.5190 | 98.4110 | 62.1036 | 907 | 95 | 929 | 15 | 5 | 33.3333 | |
| jpowers-varprowl | INDEL | * | map_l250_m2_e1 | het | 91.1695 | 90.5213 | 91.8269 | 97.1006 | 191 | 20 | 191 | 17 | 10 | 58.8235 | |
| jmaeng-gatk | SNP | ti | map_siren | * | 94.5677 | 90.5256 | 98.9876 | 65.0046 | 90847 | 9508 | 90832 | 929 | 92 | 9.9031 | |
| ltrigg-rtg2 | INDEL | * | map_l250_m1_e0 | het | 94.2599 | 90.5263 | 98.3146 | 91.6275 | 172 | 18 | 175 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.8838 | 90.5263 | 97.5000 | 91.3886 | 86 | 9 | 78 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.2517 | 90.5267 | 98.2964 | 70.3273 | 2303 | 241 | 2308 | 40 | 7 | 17.5000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 93.3594 | 90.5303 | 96.3710 | 89.2314 | 239 | 25 | 239 | 9 | 3 | 33.3333 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 75.4653 | 90.5356 | 64.6962 | 41.2162 | 1234 | 129 | 9456 | 5160 | 4823 | 93.4690 | |
| ltrigg-rtg2 | SNP | * | map_l250_m0_e0 | * | 94.8478 | 90.5386 | 99.5876 | 84.4949 | 1933 | 202 | 1932 | 8 | 3 | 37.5000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.5208 | 90.5397 | 98.8682 | 37.7022 | 1493 | 156 | 1485 | 17 | 17 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.3662 | 90.5405 | 98.5294 | 79.5181 | 67 | 7 | 67 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m0_e0 | homalt | 94.2676 | 90.5405 | 98.3146 | 84.3310 | 134 | 14 | 175 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m1_e0 | homalt | 94.6381 | 90.5405 | 99.1241 | 73.0527 | 469 | 49 | 679 | 6 | 3 | 50.0000 | |
| anovak-vg | INDEL | D1_5 | func_cds | homalt | 94.3662 | 90.5405 | 98.5294 | 29.8969 | 67 | 7 | 67 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.8673 | 90.5405 | 99.6283 | 86.5685 | 2144 | 224 | 2144 | 8 | 3 | 37.5000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e1 | * | 93.4397 | 90.5455 | 96.5251 | 89.0301 | 249 | 26 | 250 | 9 | 3 | 33.3333 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m2_e1 | * | 91.9654 | 90.5455 | 93.4307 | 84.2075 | 249 | 26 | 256 | 18 | 11 | 61.1111 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002compoundhet | hetalt | 95.0099 | 90.5470 | 99.9355 | 28.7042 | 7730 | 807 | 7742 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.8776 | 90.5512 | 97.4576 | 75.5694 | 115 | 12 | 115 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.6502 | 90.5512 | 99.1379 | 77.1203 | 115 | 12 | 115 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.8776 | 90.5512 | 97.4576 | 76.1616 | 115 | 12 | 115 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1384 | 90.5537 | 98.0186 | 60.1764 | 1668 | 174 | 1682 | 34 | 29 | 85.2941 | |
| gduggal-bwaplat | INDEL | I1_5 | func_cds | * | 95.0437 | 90.5556 | 100.0000 | 45.8472 | 163 | 17 | 163 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.8354 | 90.5579 | 99.5370 | 73.1009 | 211 | 22 | 215 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.8354 | 90.5579 | 99.5370 | 73.1009 | 211 | 22 | 215 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 94.7137 | 90.5594 | 99.2674 | 55.9677 | 259 | 27 | 271 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 94.8795 | 90.5594 | 99.6324 | 53.1842 | 259 | 27 | 271 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.2052 | 90.5600 | 93.9113 | 48.2920 | 10754 | 1121 | 12339 | 800 | 737 | 92.1250 | |
| rpoplin-dv42 | INDEL | I6_15 | * | hetalt | 94.8036 | 90.5625 | 99.4614 | 37.3252 | 7744 | 807 | 7756 | 42 | 40 | 95.2381 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.6558 | 90.5641 | 99.1346 | 40.5714 | 883 | 92 | 1031 | 9 | 9 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.6546 | 90.5641 | 99.1321 | 40.6411 | 883 | 92 | 1028 | 9 | 9 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l125_m1_e0 | * | 93.2039 | 90.5660 | 96.0000 | 91.7492 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l125_m2_e0 | * | 93.2039 | 90.5660 | 96.0000 | 92.6254 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l125_m2_e1 | * | 93.2039 | 90.5660 | 96.0000 | 92.8161 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_l125_m1_e0 | * | 93.2039 | 90.5660 | 96.0000 | 91.9094 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_l125_m2_e0 | * | 93.2039 | 90.5660 | 96.0000 | 92.7641 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_l125_m2_e1 | * | 93.2039 | 90.5660 | 96.0000 | 92.9478 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | I6_15 | map_l125_m1_e0 | * | 94.1176 | 90.5660 | 97.9592 | 93.5948 | 48 | 5 | 48 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | map_l125_m2_e0 | * | 94.1176 | 90.5660 | 97.9592 | 94.3353 | 48 | 5 | 48 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | map_l125_m2_e1 | * | 94.1176 | 90.5660 | 97.9592 | 94.4758 | 48 | 5 | 48 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | I6_15 | map_l125_m1_e0 | * | 95.0495 | 90.5660 | 100.0000 | 88.7324 | 48 | 5 | 48 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m2_e0 | * | 95.0495 | 90.5660 | 100.0000 | 90.2041 | 48 | 5 | 48 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m2_e1 | * | 95.0495 | 90.5660 | 100.0000 | 90.4950 | 48 | 5 | 48 | 0 | 0 | ||
| dgrover-gatk | INDEL | I6_15 | map_l125_m1_e0 | * | 93.2039 | 90.5660 | 96.0000 | 92.1260 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l125_m2_e0 | * | 93.2039 | 90.5660 | 96.0000 | 92.9379 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l125_m2_e1 | * | 93.2039 | 90.5660 | 96.0000 | 93.1319 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |