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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47451-47500 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I16_PLUS | func_cds | homalt | 57.1429 | 100.0000 | 40.0000 | 73.6842 | 2 | 0 | 2 | 3 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_l150_m1_e0 | homalt | 57.1429 | 66.6667 | 50.0000 | 92.5926 | 2 | 1 | 2 | 2 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_l150_m2_e0 | homalt | 57.1429 | 66.6667 | 50.0000 | 93.1034 | 2 | 1 | 2 | 2 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_l150_m2_e1 | homalt | 57.1429 | 66.6667 | 50.0000 | 93.2203 | 2 | 1 | 2 | 2 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | map_l250_m2_e0 | hetalt | 57.1429 | 40.0000 | 100.0000 | 98.3740 | 2 | 3 | 2 | 0 | 0 | ||
| qzeng-custom | SNP | * | map_l250_m2_e1 | hetalt | 57.1429 | 40.0000 | 100.0000 | 98.3871 | 2 | 3 | 2 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 57.1429 | 50.0000 | 66.6667 | 97.9021 | 2 | 2 | 2 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 57.1429 | 50.0000 | 66.6667 | 97.8102 | 2 | 2 | 2 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l150_m0_e0 | * | 57.1429 | 50.0000 | 66.6667 | 96.5909 | 4 | 4 | 4 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l250_m2_e0 | * | 57.1429 | 50.0000 | 66.6667 | 97.2603 | 4 | 4 | 4 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l250_m2_e1 | * | 57.1429 | 50.0000 | 66.6667 | 97.4138 | 4 | 4 | 4 | 2 | 2 | 100.0000 | |
| qzeng-custom | SNP | ti | map_l250_m2_e0 | hetalt | 57.1429 | 40.0000 | 100.0000 | 97.3333 | 2 | 3 | 2 | 0 | 0 | ||
| qzeng-custom | SNP | ti | map_l250_m2_e1 | hetalt | 57.1429 | 40.0000 | 100.0000 | 97.3684 | 2 | 3 | 2 | 0 | 0 | ||
| qzeng-custom | SNP | tv | map_l250_m2_e0 | hetalt | 57.1429 | 40.0000 | 100.0000 | 98.3740 | 2 | 3 | 2 | 0 | 0 | ||
| qzeng-custom | SNP | tv | map_l250_m2_e1 | hetalt | 57.1429 | 40.0000 | 100.0000 | 98.3871 | 2 | 3 | 2 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | map_l100_m1_e0 | * | 57.1254 | 40.0024 | 99.8777 | 86.7426 | 9801 | 14700 | 9799 | 12 | 2 | 16.6667 | |
| cchapple-custom | INDEL | * | HG002compoundhet | homalt | 57.1228 | 98.5423 | 40.2182 | 82.1359 | 676 | 10 | 516 | 767 | 761 | 99.2177 | |
| asubramanian-gatk | SNP | ti | map_l100_m1_e0 | homalt | 57.1201 | 39.9777 | 100.0000 | 77.0416 | 7180 | 10780 | 7180 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 57.1133 | 40.6780 | 95.8333 | 48.9362 | 24 | 35 | 23 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | het | 57.1133 | 40.6780 | 95.8333 | 92.5697 | 24 | 35 | 23 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 57.1106 | 50.0879 | 66.4235 | 43.0727 | 2563 | 2554 | 2732 | 1381 | 1057 | 76.5387 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 57.1040 | 68.1818 | 49.1228 | 92.0943 | 45 | 21 | 56 | 58 | 21 | 36.2069 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 57.0872 | 46.0813 | 75.0000 | 33.7450 | 1270 | 1486 | 1368 | 456 | 454 | 99.5614 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m0_e0 | * | 57.0815 | 42.9032 | 85.2564 | 80.1020 | 133 | 177 | 133 | 23 | 21 | 91.3043 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 57.0752 | 40.9091 | 94.3662 | 86.2934 | 135 | 195 | 134 | 8 | 3 | 37.5000 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m1_e0 | het | 57.0736 | 54.6875 | 59.6774 | 93.7183 | 35 | 29 | 37 | 25 | 4 | 16.0000 | |
| ckim-isaac | SNP | tv | map_l250_m0_e0 | homalt | 57.0370 | 39.8964 | 100.0000 | 90.1911 | 77 | 116 | 77 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | map_l250_m1_e0 | * | 57.0360 | 40.3476 | 97.2678 | 97.1909 | 1068 | 1579 | 1068 | 30 | 0 | 0.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 57.0334 | 48.7504 | 68.7072 | 56.9745 | 1736 | 1825 | 1706 | 777 | 550 | 70.7851 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 57.0248 | 41.8182 | 89.6104 | 97.1545 | 69 | 96 | 69 | 8 | 2 | 25.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 57.0126 | 39.9235 | 99.6805 | 45.7539 | 313 | 471 | 312 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 57.0116 | 54.1667 | 60.1719 | 83.5842 | 208 | 176 | 210 | 139 | 136 | 97.8417 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 57.0043 | 54.0284 | 60.3272 | 41.7857 | 114 | 97 | 295 | 194 | 159 | 81.9588 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 56.9927 | 87.3563 | 42.2925 | 67.1172 | 532 | 77 | 535 | 730 | 725 | 99.3151 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | hetalt | 56.9417 | 41.4601 | 90.8753 | 78.7291 | 4634 | 6543 | 4651 | 467 | 392 | 83.9400 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 56.9333 | 42.2920 | 87.0801 | 78.6542 | 310 | 423 | 337 | 50 | 17 | 34.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 56.9297 | 50.5845 | 65.0951 | 55.0427 | 1601 | 1564 | 1712 | 918 | 650 | 70.8061 | |
| ckim-isaac | INDEL | * | HG002compoundhet | het | 56.9247 | 80.6302 | 43.9912 | 64.9439 | 3301 | 793 | 2405 | 3062 | 2738 | 89.4187 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 56.9192 | 62.7451 | 52.0833 | 91.3514 | 32 | 19 | 25 | 23 | 2 | 8.6957 | |
| ciseli-custom | INDEL | D16_PLUS | map_siren | * | 56.9106 | 48.9510 | 67.9612 | 87.2050 | 70 | 73 | 70 | 33 | 21 | 63.6364 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 56.9106 | 85.3659 | 42.6829 | 94.4180 | 35 | 6 | 35 | 47 | 6 | 12.7660 | |
| gduggal-snapvard | INDEL | D6_15 | map_l250_m1_e0 | * | 56.9106 | 55.5556 | 58.3333 | 95.4631 | 10 | 8 | 14 | 10 | 5 | 50.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 56.9052 | 57.5758 | 56.2500 | 83.0239 | 38 | 28 | 36 | 28 | 28 | 100.0000 | |
| mlin-fermikit | SNP | ti | map_l125_m0_e0 | homalt | 56.8886 | 46.9829 | 72.0875 | 54.0574 | 2110 | 2381 | 2110 | 817 | 761 | 93.1457 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 56.8863 | 58.4740 | 55.3825 | 72.7189 | 797 | 566 | 818 | 659 | 497 | 75.4173 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 56.8750 | 100.0000 | 39.7380 | 88.6830 | 1 | 0 | 182 | 276 | 65 | 23.5507 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 56.8714 | 40.0911 | 97.8102 | 43.3884 | 176 | 263 | 134 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 56.8695 | 48.3146 | 69.1057 | 74.5868 | 86 | 92 | 85 | 38 | 38 | 100.0000 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 56.8616 | 54.1076 | 59.9109 | 50.1524 | 11144 | 9452 | 11168 | 7473 | 5485 | 73.3976 | |
| mlin-fermikit | SNP | ti | map_l150_m1_e0 | * | 56.8574 | 42.3346 | 86.5470 | 60.8408 | 8345 | 11367 | 8344 | 1297 | 1150 | 88.6662 | |