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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11901-11950 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 94.5419 | 90.7051 | 98.7175 | 44.4016 | 2830 | 290 | 2848 | 37 | 34 | 91.8919 | |
| ghariani-varprowl | INDEL | * | * | het | 89.6326 | 98.5731 | 82.1789 | 64.2989 | 191361 | 2770 | 191449 | 41517 | 38150 | 91.8901 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 47.4578 | 43.6627 | 51.9755 | 51.4637 | 2656 | 3427 | 2973 | 2747 | 2524 | 91.8821 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 63.5783 | 86.5217 | 50.2525 | 62.0690 | 199 | 31 | 199 | 197 | 181 | 91.8782 | |
| jlack-gatk | INDEL | D1_5 | HG002compoundhet | * | 93.7462 | 92.1291 | 95.4211 | 64.7145 | 11272 | 963 | 11274 | 541 | 497 | 91.8669 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.4047 | 93.2256 | 97.6882 | 56.5471 | 3633 | 264 | 3634 | 86 | 79 | 91.8605 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.7834 | 99.1728 | 92.6180 | 69.4386 | 1079 | 9 | 1079 | 86 | 79 | 91.8605 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | * | 98.0701 | 97.7744 | 98.3675 | 58.4379 | 5184 | 118 | 5182 | 86 | 79 | 91.8605 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.8095 | 30.0844 | 80.5650 | 56.8082 | 713 | 1657 | 713 | 172 | 158 | 91.8605 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 52.8148 | 39.9386 | 77.9441 | 54.2466 | 780 | 1173 | 781 | 221 | 203 | 91.8552 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 33.8099 | 25.0000 | 52.2078 | 71.4603 | 209 | 627 | 201 | 184 | 169 | 91.8478 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8690 | 98.8710 | 96.8872 | 72.0428 | 5780 | 66 | 5727 | 184 | 169 | 91.8478 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8690 | 98.8710 | 96.8872 | 72.0428 | 5780 | 66 | 5727 | 184 | 169 | 91.8478 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9305 | 96.9699 | 98.9103 | 71.3156 | 15105 | 472 | 17790 | 196 | 180 | 91.8367 | |
| hfeng-pmm3 | INDEL | D6_15 | * | homalt | 99.3845 | 99.5416 | 99.2279 | 50.7795 | 6297 | 29 | 6297 | 49 | 45 | 91.8367 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0206 | 99.3362 | 98.7071 | 54.3318 | 3741 | 25 | 3741 | 49 | 45 | 91.8367 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0206 | 99.3362 | 98.7071 | 54.3318 | 3741 | 25 | 3741 | 49 | 45 | 91.8367 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2782 | 97.1365 | 99.4471 | 33.4959 | 10109 | 298 | 17626 | 98 | 90 | 91.8367 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 68.5442 | 93.9928 | 53.9399 | 70.1347 | 28649 | 1831 | 28668 | 24480 | 22479 | 91.8260 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 68.5442 | 93.9928 | 53.9399 | 70.1347 | 28649 | 1831 | 28668 | 24480 | 22479 | 91.8260 | |
| asubramanian-gatk | INDEL | D6_15 | * | homalt | 98.3624 | 99.2096 | 97.5295 | 55.4016 | 6276 | 50 | 6277 | 159 | 146 | 91.8239 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4934 | 99.1237 | 95.9157 | 59.7456 | 3733 | 33 | 3734 | 159 | 146 | 91.8239 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4934 | 99.1237 | 95.9157 | 59.7456 | 3733 | 33 | 3734 | 159 | 146 | 91.8239 | |
| anovak-vg | INDEL | * | map_l125_m2_e1 | homalt | 76.3517 | 86.5633 | 68.2951 | 84.5478 | 670 | 104 | 685 | 318 | 292 | 91.8239 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e0 | homalt | 68.3603 | 93.5484 | 53.8588 | 82.4597 | 319 | 22 | 328 | 281 | 258 | 91.8149 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7841 | 96.1888 | 99.4332 | 49.3970 | 21402 | 848 | 21403 | 122 | 112 | 91.8033 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 83.0702 | 98.1137 | 72.0266 | 52.1291 | 3589 | 69 | 3579 | 1390 | 1276 | 91.7986 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 60.9265 | 84.9007 | 47.5105 | 54.7800 | 9750 | 1734 | 9733 | 10753 | 9871 | 91.7976 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 89.7592 | 95.7940 | 84.4397 | 65.4433 | 29198 | 1282 | 30682 | 5654 | 5190 | 91.7934 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 89.7592 | 95.7940 | 84.4397 | 65.4433 | 29198 | 1282 | 30682 | 5654 | 5190 | 91.7934 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 46.4146 | 34.9744 | 68.9769 | 73.6604 | 2941 | 5468 | 2926 | 1316 | 1208 | 91.7933 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0265 | 98.4792 | 97.5780 | 71.1859 | 17548 | 271 | 17163 | 426 | 391 | 91.7840 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.4372 | 94.3693 | 96.5296 | 62.7138 | 3838 | 229 | 4061 | 146 | 134 | 91.7808 | |
| jlack-gatk | INDEL | I1_5 | HG002compoundhet | het | 90.5365 | 97.8824 | 84.2162 | 85.4468 | 832 | 18 | 779 | 146 | 134 | 91.7808 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | homalt | 52.6207 | 43.4581 | 66.6792 | 59.8524 | 1777 | 2312 | 1777 | 888 | 815 | 91.7793 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.9151 | 90.2558 | 95.7358 | 51.6673 | 2399 | 259 | 29209 | 1301 | 1194 | 91.7756 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 87.8228 | 89.7533 | 85.9736 | 75.4953 | 473 | 54 | 521 | 85 | 78 | 91.7647 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7235 | 93.8350 | 95.6289 | 69.0222 | 9452 | 621 | 9298 | 425 | 390 | 91.7647 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 60.9324 | 77.3279 | 50.2732 | 71.4953 | 191 | 56 | 184 | 182 | 167 | 91.7582 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 80.2639 | 78.0371 | 82.6214 | 55.4597 | 3109 | 875 | 3114 | 655 | 601 | 91.7557 | |
| mlin-fermikit | SNP | * | map_l250_m1_e0 | homalt | 51.7475 | 41.7783 | 67.9657 | 72.7453 | 1029 | 1434 | 1029 | 485 | 445 | 91.7526 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 80.6539 | 91.2376 | 72.2705 | 67.9116 | 3686 | 354 | 3912 | 1501 | 1377 | 91.7388 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.0645 | 96.5066 | 93.6649 | 54.5130 | 1326 | 48 | 19117 | 1293 | 1186 | 91.7247 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3969 | 99.2733 | 95.5900 | 55.8480 | 3142 | 23 | 3143 | 145 | 133 | 91.7241 | |
| jlack-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 89.6882 | 87.2608 | 92.2546 | 52.5070 | 1870 | 273 | 1870 | 157 | 144 | 91.7197 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.2548 | 97.7351 | 94.8187 | 76.1564 | 21403 | 496 | 21393 | 1169 | 1072 | 91.7023 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 59.6850 | 58.5729 | 60.8400 | 68.6799 | 38278 | 27073 | 38154 | 24558 | 22520 | 91.7013 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 59.6850 | 58.5729 | 60.8400 | 68.6799 | 38278 | 27073 | 38154 | 24558 | 22520 | 91.7013 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 77.5159 | 76.4592 | 78.6021 | 48.9675 | 5148 | 1585 | 5128 | 1396 | 1280 | 91.6905 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.5816 | 61.9705 | 67.4224 | 73.1294 | 1302 | 799 | 1368 | 661 | 606 | 91.6793 | |