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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15201-15250 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | homalt | 99.2297 | 98.6042 | 99.8632 | 74.1727 | 2190 | 31 | 2190 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5706 | 99.1399 | 92.2494 | 66.0177 | 2190 | 19 | 2190 | 184 | 181 | 98.3696 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.2519 | 99.0946 | 89.8604 | 65.5446 | 2189 | 20 | 2189 | 247 | 241 | 97.5709 | |
| egarrison-hhga | INDEL | * | map_l100_m1_e0 | het | 97.5114 | 97.9418 | 97.0848 | 83.6025 | 2189 | 46 | 2198 | 66 | 29 | 43.9394 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.4228 | 99.0946 | 92.0135 | 66.0676 | 2189 | 20 | 2189 | 190 | 184 | 96.8421 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.8504 | 59.7109 | 96.7642 | 46.8551 | 2189 | 1477 | 2183 | 73 | 54 | 73.9726 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.4664 | 90.7546 | 96.3452 | 62.2067 | 2189 | 223 | 2188 | 83 | 56 | 67.4699 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.7755 | 59.7109 | 96.5075 | 47.3586 | 2189 | 1477 | 2183 | 79 | 55 | 69.6203 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.1076 | 99.0041 | 91.5063 | 65.9399 | 2187 | 22 | 2187 | 203 | 195 | 96.0591 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.7876 | 99.0041 | 85.5516 | 65.0041 | 2187 | 22 | 2179 | 368 | 361 | 98.0978 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | * | 98.3157 | 98.2921 | 98.3393 | 89.1708 | 2187 | 38 | 2191 | 37 | 8 | 21.6216 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.8267 | 99.3639 | 98.2952 | 44.3446 | 2187 | 14 | 2191 | 38 | 38 | 100.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | * | 98.5806 | 98.2921 | 98.8708 | 86.7884 | 2187 | 38 | 2189 | 25 | 8 | 32.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.2713 | 98.9588 | 91.8487 | 64.7877 | 2186 | 23 | 2186 | 194 | 191 | 98.4536 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 85.3739 | 82.2047 | 88.7974 | 65.9324 | 2185 | 473 | 2156 | 272 | 162 | 59.5588 | |
| jlack-gatk | INDEL | * | map_l125_m2_e1 | * | 94.6989 | 98.2022 | 91.4369 | 90.8050 | 2185 | 40 | 2189 | 205 | 14 | 6.8293 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.8372 | 90.5887 | 97.3274 | 60.9904 | 2185 | 227 | 2185 | 60 | 44 | 73.3333 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 83.5594 | 82.2599 | 84.9006 | 82.0181 | 2184 | 471 | 2221 | 395 | 339 | 85.8228 | |
| jpowers-varprowl | INDEL | * | map_l100_m2_e1 | het | 91.5148 | 93.2138 | 89.8765 | 87.3477 | 2184 | 159 | 2184 | 246 | 199 | 80.8943 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e1 | * | 96.6186 | 98.1124 | 95.1697 | 91.5159 | 2183 | 42 | 2187 | 111 | 11 | 9.9099 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002compoundhet | * | 95.1177 | 93.2080 | 97.1073 | 33.8339 | 2182 | 159 | 2182 | 65 | 63 | 96.9231 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 76.3516 | 67.9439 | 87.1341 | 64.1684 | 2181 | 1029 | 2262 | 334 | 260 | 77.8443 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.9564 | 98.1990 | 99.7257 | 68.9479 | 2181 | 40 | 2181 | 6 | 4 | 66.6667 | |
| astatham-gatk | INDEL | D1_5 | map_siren | het | 97.1940 | 95.7839 | 98.6462 | 82.2862 | 2181 | 96 | 2186 | 30 | 2 | 6.6667 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.9096 | 99.0913 | 98.7286 | 42.0919 | 2181 | 20 | 2252 | 29 | 10 | 34.4828 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002compoundhet | * | 95.0927 | 93.1226 | 97.1480 | 33.6879 | 2180 | 161 | 2180 | 64 | 63 | 98.4375 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002compoundhet | * | 95.0512 | 93.1226 | 97.0614 | 33.7659 | 2180 | 161 | 2180 | 66 | 62 | 93.9394 | |
| ghariani-varprowl | INDEL | I6_15 | HG002complexvar | het | 82.0261 | 92.4841 | 73.6930 | 59.9920 | 2178 | 177 | 2213 | 790 | 772 | 97.7215 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 51.4209 | 36.9403 | 84.5736 | 68.1324 | 2178 | 3718 | 2182 | 398 | 329 | 82.6633 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 51.4209 | 36.9403 | 84.5736 | 68.1324 | 2178 | 3718 | 2182 | 398 | 329 | 82.6633 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e0 | het | 85.0151 | 94.3650 | 77.3510 | 88.3503 | 2177 | 130 | 3101 | 908 | 421 | 46.3656 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.4605 | 98.5514 | 94.4565 | 64.0006 | 2177 | 32 | 2181 | 128 | 121 | 94.5312 | |
| astatham-gatk | INDEL | * | map_l100_m2_e1 | het | 95.0891 | 92.9151 | 97.3672 | 87.6413 | 2177 | 166 | 2182 | 59 | 12 | 20.3390 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0557 | 90.2945 | 95.9912 | 59.3990 | 2177 | 234 | 2179 | 91 | 83 | 91.2088 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | het | 97.2839 | 97.4049 | 97.1631 | 83.0935 | 2177 | 58 | 2192 | 64 | 26 | 40.6250 | |
| rpoplin-dv42 | SNP | tv | map_l125_m0_e0 | homalt | 98.8647 | 98.0189 | 99.7251 | 70.7294 | 2177 | 44 | 2177 | 6 | 6 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m2_e0 | het | 96.7120 | 94.3650 | 99.1788 | 77.1166 | 2177 | 130 | 2174 | 18 | 2 | 11.1111 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 88.3969 | 79.4375 | 99.6342 | 42.5683 | 2175 | 563 | 2179 | 8 | 4 | 50.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 70.1659 | 88.4506 | 58.1458 | 66.8417 | 2175 | 284 | 2791 | 2009 | 225 | 11.1996 | |
| ckim-vqsr | SNP | ti | map_l250_m2_e1 | * | 59.7117 | 42.8487 | 98.4608 | 97.0448 | 2175 | 2901 | 2175 | 34 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3604 | 98.8187 | 99.9081 | 42.3617 | 2175 | 26 | 2175 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | * | 97.9512 | 97.7079 | 98.1958 | 98.2777 | 2174 | 51 | 2177 | 40 | 15 | 37.5000 | |
| gduggal-snapvard | INDEL | * | segdup | * | 85.3233 | 85.0548 | 85.5935 | 95.1733 | 2174 | 382 | 2430 | 409 | 309 | 75.5501 | |
| rpoplin-dv42 | INDEL | * | map_l100_m1_e0 | het | 97.7103 | 97.2707 | 98.1540 | 83.4501 | 2174 | 61 | 2180 | 41 | 18 | 43.9024 | |
| jlack-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.7279 | 97.8388 | 99.6332 | 70.1233 | 2173 | 48 | 2173 | 8 | 5 | 62.5000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | * | 98.0600 | 97.6180 | 98.5061 | 98.7184 | 2172 | 53 | 2176 | 33 | 14 | 42.4242 | |
| raldana-dualsentieon | INDEL | * | map_l100_m1_e0 | het | 97.6425 | 97.1812 | 98.1081 | 82.4811 | 2172 | 63 | 2178 | 42 | 8 | 19.0476 | |
| gduggal-bwaplat | INDEL | D16_PLUS | * | het | 80.5941 | 68.7559 | 97.3566 | 80.9524 | 2172 | 987 | 2173 | 59 | 43 | 72.8814 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.6922 | 99.9080 | 91.8178 | 68.6059 | 2172 | 2 | 2076 | 185 | 3 | 1.6216 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4934 | 99.9080 | 99.0821 | 64.7126 | 2172 | 2 | 2159 | 20 | 1 | 5.0000 | |