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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51201-51250 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | I16_PLUS | * | * | 18.6757 | 11.2906 | 53.9910 | 75.8984 | 720 | 5657 | 717 | 611 | 525 | 85.9247 | |
| gduggal-bwavard | INDEL | D1_5 | HG002compoundhet | * | 18.6118 | 15.4230 | 23.4630 | 68.0839 | 1887 | 10348 | 1786 | 5826 | 5576 | 95.7089 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 18.5714 | 12.0370 | 40.6250 | 54.2857 | 13 | 95 | 13 | 19 | 3 | 15.7895 | |
| ghariani-varprowl | INDEL | D1_5 | HG002compoundhet | * | 18.5546 | 15.5456 | 23.0082 | 71.0145 | 1902 | 10333 | 1880 | 6291 | 6060 | 96.3281 | |
| ckim-gatk | INDEL | I6_15 | HG002compoundhet | homalt | 18.5075 | 100.0000 | 10.1974 | 63.1068 | 31 | 0 | 31 | 273 | 272 | 99.6337 | |
| ckim-vqsr | INDEL | I6_15 | HG002compoundhet | homalt | 18.5075 | 100.0000 | 10.1974 | 63.1068 | 31 | 0 | 31 | 273 | 272 | 99.6337 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 18.4985 | 11.8280 | 42.4242 | 51.4706 | 22 | 164 | 70 | 95 | 84 | 88.4211 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 18.4615 | 11.0599 | 55.8140 | 75.1445 | 24 | 193 | 24 | 19 | 14 | 73.6842 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 18.4211 | 11.8644 | 41.1765 | 77.0270 | 7 | 52 | 7 | 10 | 4 | 40.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 18.4100 | 10.6796 | 66.6667 | 69.1589 | 22 | 184 | 22 | 11 | 10 | 90.9091 | |
| astatham-gatk | INDEL | I6_15 | HG002compoundhet | homalt | 18.3976 | 100.0000 | 10.1307 | 62.6829 | 31 | 0 | 31 | 275 | 274 | 99.6364 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 18.3933 | 12.4471 | 35.2174 | 39.3140 | 147 | 1034 | 162 | 298 | 265 | 88.9262 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 18.3861 | 14.4397 | 25.3012 | 64.2755 | 67 | 397 | 63 | 186 | 4 | 2.1505 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 18.3177 | 25.9009 | 14.1693 | 78.4001 | 345 | 987 | 365 | 2211 | 26 | 1.1759 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002compoundhet | homalt | 18.3051 | 87.0968 | 10.2273 | 63.1285 | 27 | 4 | 27 | 237 | 215 | 90.7173 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m1_e0 | het | 18.3007 | 11.8644 | 40.0000 | 93.4211 | 7 | 52 | 6 | 9 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 18.2169 | 11.6667 | 41.5385 | 87.5836 | 56 | 424 | 54 | 76 | 61 | 80.2632 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 18.1984 | 12.1359 | 36.3636 | 91.4286 | 25 | 181 | 24 | 42 | 24 | 57.1429 | |
| ckim-isaac | INDEL | D16_PLUS | map_l125_m0_e0 | het | 18.1818 | 11.1111 | 50.0000 | 97.1014 | 1 | 8 | 1 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | C1_5 | HG002compoundhet | * | 18.1818 | 100.0000 | 10.0000 | 71.4286 | 1 | 0 | 1 | 9 | 4 | 44.4444 | |
| gduggal-snapplat | INDEL | D6_15 | map_l125_m2_e1 | hetalt | 18.1818 | 10.0000 | 100.0000 | 98.5507 | 2 | 18 | 2 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | tech_badpromoters | het | 18.1818 | 10.0000 | 100.0000 | 88.8889 | 1 | 9 | 1 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 18.1818 | 100.0000 | 10.0000 | 75.6098 | 1 | 0 | 1 | 9 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002compoundhet | homalt | 18.1818 | 100.0000 | 10.0000 | 54.4592 | 24 | 0 | 24 | 216 | 151 | 69.9074 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 18.1575 | 16.2675 | 20.5446 | 86.8404 | 163 | 839 | 166 | 642 | 34 | 5.2960 | |
| jpowers-varprowl | INDEL | D1_5 | HG002compoundhet | * | 18.0756 | 14.9571 | 22.8370 | 69.8480 | 1830 | 10405 | 1816 | 6136 | 5980 | 97.4576 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 18.0539 | 11.9565 | 36.8421 | 58.6957 | 11 | 81 | 7 | 12 | 7 | 58.3333 | |
| ghariani-varprowl | INDEL | D16_PLUS | HG002compoundhet | * | 18.0085 | 15.8906 | 20.7778 | 37.7809 | 372 | 1969 | 374 | 1426 | 1417 | 99.3689 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 17.9562 | 55.4054 | 10.7143 | 41.9355 | 82 | 66 | 81 | 675 | 674 | 99.8519 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 17.9104 | 10.5263 | 60.0000 | 67.7419 | 10 | 85 | 12 | 8 | 8 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 17.8914 | 14.8148 | 22.5806 | 56.6434 | 16 | 92 | 14 | 48 | 8 | 16.6667 | |
| ciseli-custom | INDEL | D16_PLUS | HG002compoundhet | het | 17.8807 | 11.8519 | 36.3934 | 44.8463 | 48 | 357 | 111 | 194 | 186 | 95.8763 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 17.8608 | 9.9044 | 90.8088 | 60.0587 | 373 | 3393 | 247 | 25 | 25 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 17.8608 | 9.9044 | 90.8088 | 60.0587 | 373 | 3393 | 247 | 25 | 25 | 100.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 17.8468 | 9.9840 | 84.0000 | 62.9630 | 125 | 1127 | 126 | 24 | 19 | 79.1667 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 17.8423 | 11.0825 | 45.7447 | 82.7206 | 43 | 345 | 43 | 51 | 42 | 82.3529 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m2_e0 | het | 17.8344 | 11.4754 | 40.0000 | 94.1406 | 7 | 54 | 6 | 9 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m2_e1 | het | 17.8344 | 11.4754 | 40.0000 | 94.2748 | 7 | 54 | 6 | 9 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 17.8218 | 9.7826 | 100.0000 | 82.0000 | 9 | 83 | 9 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 17.8082 | 19.6970 | 16.2500 | 98.7063 | 13 | 53 | 13 | 67 | 2 | 2.9851 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 17.7637 | 11.1244 | 44.0594 | 77.0193 | 93 | 743 | 89 | 113 | 102 | 90.2655 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 17.7419 | 15.4930 | 20.7547 | 46.1929 | 22 | 120 | 22 | 84 | 84 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 17.7156 | 10.2151 | 66.6667 | 89.1129 | 19 | 167 | 18 | 9 | 9 | 100.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | * | het | 17.6734 | 11.3960 | 39.3474 | 71.0797 | 360 | 2799 | 410 | 632 | 372 | 58.8608 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 17.6716 | 10.8017 | 48.5470 | 60.1499 | 322 | 2659 | 284 | 301 | 281 | 93.3555 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 17.6471 | 11.5385 | 37.5000 | 85.1852 | 6 | 46 | 6 | 10 | 7 | 70.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 17.5930 | 11.9082 | 33.6634 | 40.2367 | 83 | 614 | 102 | 201 | 155 | 77.1144 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 17.5627 | 9.9796 | 73.1343 | 69.4064 | 49 | 442 | 49 | 18 | 14 | 77.7778 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 17.4592 | 9.6774 | 89.1304 | 79.6460 | 21 | 196 | 41 | 5 | 4 | 80.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 17.4295 | 10.9553 | 42.6117 | 84.6357 | 125 | 1016 | 124 | 167 | 140 | 83.8323 | |