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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67651-67700 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6703 | 98.8971 | 98.4446 | 64.4784 | 1076 | 12 | 1076 | 17 | 12 | 70.5882 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8631 | 95.1331 | 98.6572 | 48.4108 | 1251 | 64 | 1249 | 17 | 12 | 70.5882 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9828 | 98.1401 | 97.8261 | 72.8896 | 1583 | 30 | 1530 | 34 | 24 | 70.5882 | |
| jlack-gatk | SNP | * | map_l125_m0_e0 | homalt | 98.7740 | 97.8248 | 99.7418 | 68.3464 | 6566 | 146 | 6566 | 17 | 12 | 70.5882 | |
| astatham-gatk | INDEL | D1_5 | * | * | 99.5682 | 99.4433 | 99.6934 | 60.4898 | 145928 | 817 | 145983 | 449 | 317 | 70.6013 | |
| gduggal-snapfb | INDEL | * | * | homalt | 94.4791 | 93.5105 | 95.4679 | 58.3050 | 117049 | 8123 | 117099 | 5559 | 3925 | 70.6062 | |
| anovak-vg | INDEL | D1_5 | * | * | 90.2130 | 89.2296 | 91.2183 | 56.6455 | 130940 | 15805 | 132532 | 12759 | 9010 | 70.6168 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.6168 | 96.8493 | 96.3855 | 66.9947 | 4703 | 153 | 4720 | 177 | 125 | 70.6215 | |
| ciseli-custom | SNP | * | map_l250_m1_e0 | homalt | 80.5510 | 78.2785 | 82.9594 | 86.9401 | 1928 | 535 | 1923 | 395 | 279 | 70.6329 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.4471 | 27.4775 | 46.1538 | 56.0976 | 61 | 161 | 108 | 126 | 89 | 70.6349 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 79.0331 | 95.6616 | 67.3294 | 69.9860 | 882 | 40 | 1727 | 838 | 592 | 70.6444 | |
| ckim-isaac | INDEL | * | * | * | 95.8099 | 93.7006 | 98.0163 | 48.2658 | 322838 | 21704 | 321857 | 6514 | 4603 | 70.6632 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | homalt | 46.8802 | 63.5258 | 37.1467 | 83.7347 | 209 | 120 | 276 | 467 | 330 | 70.6638 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002complexvar | * | 84.9902 | 80.5843 | 89.9058 | 63.0348 | 1324 | 319 | 1336 | 150 | 106 | 70.6667 | |
| 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 | |
| ciseli-custom | INDEL | I16_PLUS | * | het | 16.1440 | 9.3451 | 59.2506 | 84.8956 | 254 | 2464 | 253 | 174 | 123 | 70.6897 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e0 | * | 96.5842 | 96.1648 | 97.0072 | 95.5563 | 1354 | 54 | 1880 | 58 | 41 | 70.6897 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e1 | homalt | 99.1488 | 98.9250 | 99.3737 | 68.5771 | 9202 | 100 | 9202 | 58 | 41 | 70.6897 | |
| ciseli-custom | SNP | tv | map_siren | homalt | 92.1923 | 91.6589 | 92.7320 | 56.2107 | 15802 | 1438 | 15770 | 1236 | 874 | 70.7120 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.4907 | 96.3100 | 96.6721 | 79.6867 | 1305 | 50 | 1191 | 41 | 29 | 70.7317 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e0 | * | 66.9120 | 61.7424 | 73.0263 | 82.9213 | 163 | 101 | 222 | 82 | 58 | 70.7317 | |
| anovak-vg | INDEL | I1_5 | func_cds | * | 77.5623 | 77.7778 | 77.3481 | 34.6570 | 140 | 40 | 140 | 41 | 29 | 70.7317 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m2_e0 | het | 93.9573 | 93.1904 | 94.7368 | 87.3601 | 739 | 54 | 738 | 41 | 29 | 70.7317 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m2_e1 | het | 93.9532 | 93.0864 | 94.8363 | 87.4783 | 754 | 56 | 753 | 41 | 29 | 70.7317 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 70.9040 | 85.7657 | 60.4321 | 53.0525 | 9526 | 1581 | 16837 | 11024 | 7799 | 70.7456 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.5216 | 89.4845 | 95.7722 | 64.1176 | 3489 | 410 | 3330 | 147 | 104 | 70.7483 | |
| mlin-fermikit | INDEL | * | map_l125_m0_e0 | * | 59.8688 | 47.8458 | 79.9622 | 82.3077 | 422 | 460 | 423 | 106 | 75 | 70.7547 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.5216 | 75.5967 | 90.8430 | 68.5420 | 2692 | 869 | 2748 | 277 | 196 | 70.7581 | |
| 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 | |
| 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 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.7458 | 97.3384 | 98.1567 | 52.5683 | 1280 | 35 | 1278 | 24 | 17 | 70.8333 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 37.5202 | 27.1605 | 60.6557 | 60.8974 | 22 | 59 | 37 | 24 | 17 | 70.8333 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1887 | 96.0131 | 98.3936 | 84.9441 | 1469 | 61 | 1470 | 24 | 17 | 70.8333 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1887 | 96.0131 | 98.3936 | 84.9441 | 1469 | 61 | 1470 | 24 | 17 | 70.8333 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 1.8576 | 0.9740 | 20.0000 | 60.0000 | 6 | 610 | 6 | 24 | 17 | 70.8333 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 3.3520 | 1.8293 | 20.0000 | 59.4595 | 3 | 161 | 6 | 24 | 17 | 70.8333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4718 | 96.8061 | 98.1467 | 52.3196 | 1273 | 42 | 1271 | 24 | 17 | 70.8333 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.9545 | 92.8719 | 97.1326 | 81.0032 | 899 | 69 | 813 | 24 | 17 | 70.8333 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m1_e0 | het | 93.7500 | 92.5926 | 94.9367 | 88.7357 | 450 | 36 | 450 | 24 | 17 | 70.8333 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7968 | 99.7563 | 99.8374 | 54.8306 | 14734 | 36 | 14736 | 24 | 17 | 70.8333 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m2_e1 | * | 78.8076 | 77.3438 | 80.3279 | 92.3845 | 99 | 29 | 98 | 24 | 17 | 70.8333 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m2_e1 | het | 85.0227 | 98.5915 | 74.7368 | 93.3287 | 70 | 1 | 71 | 24 | 17 | 70.8333 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m0_e0 | * | 97.7243 | 97.7901 | 97.6585 | 83.5553 | 531 | 12 | 1001 | 24 | 17 | 70.8333 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e1 | * | 96.4393 | 96.0449 | 96.8369 | 94.4522 | 2137 | 88 | 2939 | 96 | 68 | 70.8333 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 65.0019 | 66.3696 | 63.6895 | 52.5107 | 13181 | 6679 | 19510 | 11123 | 7883 | 70.8712 | |
| anovak-vg | SNP | * | HG002compoundhet | * | 78.0620 | 76.6207 | 79.5586 | 43.6697 | 19785 | 6037 | 20297 | 5215 | 3696 | 70.8725 | |
| jpowers-varprowl | INDEL | * | map_l125_m1_e0 | het | 92.8465 | 93.3333 | 92.3647 | 89.2132 | 1246 | 89 | 1246 | 103 | 73 | 70.8738 | |
| ghariani-varprowl | INDEL | * | * | homalt | 92.0100 | 87.3111 | 97.2434 | 45.5820 | 109289 | 15883 | 109183 | 3095 | 2195 | 70.9208 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 66.3810 | 65.0448 | 67.7731 | 41.7349 | 15962 | 8578 | 15905 | 7563 | 5364 | 70.9242 | |
| ciseli-custom | SNP | tv | map_l250_m1_e0 | homalt | 77.9222 | 74.8832 | 81.2183 | 87.6682 | 641 | 215 | 640 | 148 | 105 | 70.9459 | |