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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50351-50400 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.5183 | 78.0351 | 99.6251 | 29.7101 | 977 | 275 | 1063 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.5209 | 83.4104 | 92.0575 | 35.5502 | 1443 | 287 | 1472 | 127 | 115 | 90.5512 | |
| anovak-vg | SNP | tv | map_l100_m0_e0 | homalt | 87.5215 | 78.2371 | 99.3060 | 64.7976 | 3009 | 837 | 3005 | 21 | 17 | 80.9524 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m2_e1 | het | 87.5233 | 92.1569 | 83.3333 | 94.0199 | 47 | 4 | 45 | 9 | 4 | 44.4444 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.5291 | 86.9258 | 88.1409 | 52.6080 | 19341 | 2909 | 20149 | 2711 | 1465 | 54.0391 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 87.5304 | 79.5455 | 97.2973 | 66.0550 | 35 | 9 | 36 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | homalt | 87.5361 | 80.5253 | 95.8841 | 57.8947 | 1257 | 304 | 1258 | 54 | 51 | 94.4444 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.5378 | 78.4574 | 98.9950 | 44.8753 | 590 | 162 | 591 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.5391 | 79.3197 | 97.6589 | 50.7414 | 583 | 152 | 584 | 14 | 14 | 100.0000 | |
| qzeng-custom | SNP | ti | map_l100_m2_e0 | het | 87.5433 | 79.2078 | 97.8395 | 80.9563 | 24255 | 6367 | 24137 | 533 | 415 | 77.8612 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 87.5446 | 82.8245 | 92.8353 | 37.8851 | 3337 | 692 | 1516 | 117 | 56 | 47.8632 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.5472 | 80.0000 | 96.6667 | 61.0390 | 28 | 7 | 29 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l250_m1_e0 | homalt | 87.5513 | 77.9537 | 99.8439 | 88.7661 | 1920 | 543 | 1919 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.5573 | 82.7344 | 92.9773 | 75.9228 | 944 | 197 | 940 | 71 | 43 | 60.5634 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.5596 | 80.9211 | 95.3846 | 90.3561 | 123 | 29 | 124 | 6 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 87.5740 | 97.1061 | 79.7460 | 45.0808 | 302 | 9 | 1193 | 303 | 283 | 93.3993 | |
| gduggal-snapvard | INDEL | D1_5 | func_cds | * | 87.5742 | 91.8239 | 83.7004 | 42.8212 | 146 | 13 | 190 | 37 | 33 | 89.1892 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 87.5758 | 78.1038 | 99.6623 | 73.9048 | 2076 | 582 | 2066 | 7 | 7 | 100.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.5770 | 82.0514 | 93.9006 | 76.3684 | 45646 | 9985 | 45754 | 2972 | 322 | 10.8345 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.5783 | 85.5583 | 89.6959 | 70.2246 | 80809 | 13640 | 139087 | 15978 | 15625 | 97.7907 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 87.5803 | 85.6459 | 89.6040 | 74.6550 | 179 | 30 | 181 | 21 | 11 | 52.3810 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | hetalt | 87.5829 | 80.7692 | 95.6522 | 79.6460 | 21 | 5 | 22 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.5847 | 96.7922 | 79.9769 | 63.6211 | 694 | 23 | 691 | 173 | 173 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l125_m0_e0 | homalt | 87.5912 | 83.3333 | 92.3077 | 87.2549 | 5 | 1 | 12 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 87.5916 | 78.3357 | 99.3277 | 35.7451 | 546 | 151 | 591 | 4 | 4 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e1 | homalt | 87.5932 | 81.0496 | 95.2862 | 90.4348 | 278 | 65 | 283 | 14 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 87.5997 | 84.4444 | 91.0000 | 79.0356 | 114 | 21 | 91 | 9 | 8 | 88.8889 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e1 | het | 87.6002 | 97.6341 | 79.4365 | 87.6420 | 1238 | 30 | 1607 | 416 | 161 | 38.7019 | |
| gduggal-bwaplat | INDEL | D6_15 | * | het | 87.6003 | 79.2874 | 97.8603 | 73.1960 | 9191 | 2401 | 9193 | 201 | 85 | 42.2886 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 87.6040 | 79.4025 | 97.6949 | 50.4555 | 3774 | 979 | 3772 | 89 | 75 | 84.2697 | |
| qzeng-custom | INDEL | I1_5 | map_siren | het | 87.6104 | 81.4396 | 94.7930 | 85.2134 | 1369 | 312 | 1511 | 83 | 20 | 24.0964 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.6106 | 86.8839 | 88.3495 | 88.3802 | 17011 | 2568 | 17070 | 2251 | 184 | 8.1741 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.6106 | 86.8839 | 88.3495 | 88.3802 | 17011 | 2568 | 17070 | 2251 | 184 | 8.1741 | |
| jlack-gatk | INDEL | D16_PLUS | map_siren | het | 87.6125 | 93.5897 | 82.3529 | 95.8313 | 73 | 5 | 70 | 15 | 2 | 13.3333 | |
| gduggal-bwafb | INDEL | * | * | hetalt | 87.6150 | 80.5643 | 96.0183 | 78.7583 | 20332 | 4905 | 6728 | 279 | 275 | 98.5663 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.6160 | 82.5603 | 93.3313 | 53.0320 | 3044 | 643 | 3065 | 219 | 187 | 85.3881 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 87.6190 | 92.0000 | 83.6364 | 85.0949 | 46 | 4 | 46 | 9 | 2 | 22.2222 | |
| ckim-gatk | SNP | ti | map_siren | hetalt | 87.6190 | 80.7018 | 95.8333 | 80.9524 | 46 | 11 | 46 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | * | map_l250_m0_e0 | het | 87.6190 | 86.7925 | 88.4615 | 96.4817 | 46 | 7 | 46 | 6 | 1 | 16.6667 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.6239 | 79.2796 | 97.9313 | 58.0115 | 2223 | 581 | 2225 | 47 | 44 | 93.6170 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 87.6250 | 95.3668 | 81.0458 | 57.1429 | 247 | 12 | 248 | 58 | 41 | 70.6897 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 87.6253 | 90.1478 | 85.2402 | 88.4281 | 2928 | 320 | 2928 | 507 | 25 | 4.9310 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m1_e0 | homalt | 87.6307 | 81.8533 | 94.2857 | 87.4897 | 424 | 94 | 429 | 26 | 1 | 3.8462 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.6321 | 89.4447 | 85.8915 | 75.4124 | 1627 | 192 | 1869 | 307 | 263 | 85.6678 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.6321 | 89.4447 | 85.8915 | 75.4124 | 1627 | 192 | 1869 | 307 | 263 | 85.6678 | |
| ciseli-custom | INDEL | D1_5 | * | * | 87.6336 | 88.4662 | 86.8164 | 62.0849 | 129818 | 16925 | 129564 | 19675 | 10919 | 55.4968 | |
| ckim-isaac | INDEL | * | * | hetalt | 87.6357 | 79.0308 | 98.3434 | 43.3219 | 19945 | 5292 | 20303 | 342 | 304 | 88.8889 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.6416 | 80.8917 | 95.6204 | 51.7606 | 127 | 30 | 131 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 87.6436 | 79.6791 | 97.3770 | 64.0330 | 298 | 76 | 297 | 8 | 7 | 87.5000 | |
| qzeng-custom | SNP | ti | map_l100_m2_e1 | het | 87.6458 | 79.3605 | 97.8627 | 80.9215 | 24570 | 6390 | 24451 | 534 | 415 | 77.7154 | |