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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59101-59150 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | ti | map_siren | homalt | 99.8535 | 99.7547 | 99.9524 | 48.7705 | 37823 | 93 | 37817 | 18 | 16 | 88.8889 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2550 | 99.5338 | 98.9778 | 48.7637 | 8327 | 39 | 8327 | 86 | 84 | 97.6744 | |
| mlin-fermikit | SNP | * | map_l100_m1_e0 | homalt | 73.8610 | 67.4221 | 81.6596 | 48.7624 | 18206 | 8797 | 18206 | 4089 | 3913 | 95.6958 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5195 | 99.4061 | 99.6332 | 48.7604 | 10042 | 60 | 10049 | 37 | 25 | 67.5676 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 79.6992 | 74.6479 | 85.4839 | 48.7603 | 53 | 18 | 53 | 9 | 7 | 77.7778 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 38.9448 | 36.3079 | 41.9946 | 48.7568 | 3434 | 6024 | 3436 | 4746 | 4690 | 98.8201 | |
| mlin-fermikit | INDEL | D6_15 | func_cds | * | 97.6190 | 95.3488 | 100.0000 | 48.7500 | 41 | 2 | 41 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 91.9540 | 86.9565 | 97.5610 | 48.7500 | 40 | 6 | 40 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 44.1015 | 42.1796 | 46.2069 | 48.7496 | 2241 | 3072 | 3551 | 4134 | 3627 | 87.7358 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4637 | 99.3248 | 99.6031 | 48.7496 | 4266 | 29 | 4266 | 17 | 2 | 11.7647 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8226 | 97.8845 | 99.7788 | 48.7459 | 3609 | 78 | 3609 | 8 | 6 | 75.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.4108 | 90.6200 | 98.5326 | 48.7374 | 5072 | 525 | 11281 | 168 | 144 | 85.7143 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 67.6237 | 92.1660 | 53.4032 | 48.7367 | 3353 | 285 | 3413 | 2978 | 2941 | 98.7576 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | homalt | 84.4830 | 77.2455 | 93.2169 | 48.7355 | 903 | 266 | 907 | 66 | 15 | 22.7273 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7579 | 92.9553 | 96.6318 | 48.7341 | 3246 | 246 | 4246 | 148 | 137 | 92.5676 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 89.5893 | 84.9685 | 94.7416 | 48.7318 | 7145 | 1264 | 13711 | 761 | 716 | 94.0867 | |
| ghariani-varprowl | INDEL | D1_5 | func_cds | het | 91.3978 | 100.0000 | 84.1584 | 48.7310 | 85 | 0 | 85 | 16 | 10 | 62.5000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 66.9508 | 90.0254 | 53.2915 | 48.7249 | 14188 | 1572 | 14272 | 12509 | 12414 | 99.2405 | |
| jpowers-varprowl | SNP | * | HG002compoundhet | * | 90.5976 | 92.3941 | 88.8696 | 48.7204 | 23858 | 1964 | 24057 | 3013 | 2048 | 67.9721 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.9454 | 75.3546 | 100.0000 | 48.7179 | 425 | 139 | 420 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 55.8285 | 72.0960 | 45.5506 | 48.7100 | 1111 | 430 | 3450 | 4124 | 3618 | 87.7304 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4059 | 99.3368 | 99.4750 | 48.7096 | 10035 | 67 | 10043 | 53 | 44 | 83.0189 | |
| ltrigg-rtg1 | SNP | * | tech_badpromoters | homalt | 99.3711 | 98.7500 | 100.0000 | 48.7013 | 79 | 1 | 79 | 0 | 0 | ||
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1826 | 98.7253 | 99.6441 | 48.7010 | 3640 | 47 | 3640 | 13 | 10 | 76.9231 | |
| cchapple-custom | SNP | * | map_siren | homalt | 99.1241 | 98.2758 | 99.9871 | 48.6990 | 54205 | 951 | 54173 | 7 | 7 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_siren | het | 99.2561 | 98.9032 | 99.6115 | 48.6936 | 89992 | 998 | 89996 | 351 | 16 | 4.5584 | |
| rpoplin-dv42 | INDEL | I6_15 | * | homalt | 97.7056 | 96.5700 | 98.8683 | 48.6914 | 6025 | 214 | 6028 | 69 | 68 | 98.5507 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | homalt | 74.1328 | 83.6612 | 66.5529 | 48.6865 | 978 | 191 | 975 | 490 | 482 | 98.3673 | |
| jli-custom | SNP | * | tech_badpromoters | * | 98.4026 | 98.0892 | 98.7179 | 48.6842 | 154 | 3 | 154 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.7263 | 84.7170 | 100.0000 | 48.6813 | 449 | 81 | 467 | 0 | 0 | ||
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2934 | 98.0494 | 98.5385 | 48.6812 | 6585 | 131 | 8091 | 120 | 75 | 62.5000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.0920 | 69.5839 | 88.9706 | 48.6792 | 485 | 212 | 484 | 60 | 59 | 98.3333 | |
| eyeh-varpipe | SNP | * | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 48.6667 | 80 | 0 | 77 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8636 | 99.8363 | 99.8908 | 48.6619 | 3660 | 6 | 3660 | 4 | 4 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | * | 83.7635 | 78.4798 | 89.8099 | 48.6609 | 4161 | 1141 | 4063 | 461 | 184 | 39.9132 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.2998 | 97.7430 | 96.8606 | 48.6593 | 9874 | 228 | 10089 | 327 | 264 | 80.7339 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 32.6838 | 19.8128 | 93.2836 | 48.6590 | 127 | 514 | 125 | 9 | 4 | 44.4444 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | hetalt | 97.4274 | 95.1629 | 99.8024 | 48.6555 | 964 | 49 | 1010 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8194 | 97.8947 | 99.7616 | 48.6536 | 837 | 18 | 837 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8127 | 99.4294 | 98.2036 | 48.6526 | 2788 | 16 | 2788 | 51 | 50 | 98.0392 | |
| ghariani-varprowl | INDEL | D1_5 | tech_badpromoters | * | 73.6842 | 73.6842 | 73.6842 | 48.6486 | 14 | 5 | 14 | 5 | 5 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 31.5326 | 23.3410 | 48.5830 | 48.6486 | 102 | 335 | 120 | 127 | 95 | 74.8031 | |
| ciseli-custom | SNP | * | tech_badpromoters | * | 85.2439 | 94.9045 | 77.3684 | 48.6486 | 149 | 8 | 147 | 43 | 1 | 2.3256 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1157 | 94.7910 | 99.5574 | 48.6452 | 5623 | 309 | 5623 | 25 | 23 | 92.0000 | |
| jli-custom | SNP | ti | map_siren | homalt | 99.8561 | 99.7521 | 99.9604 | 48.6440 | 37822 | 94 | 37819 | 15 | 15 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5538 | 96.9440 | 94.2029 | 48.6379 | 1142 | 36 | 3055 | 188 | 176 | 93.6170 | |
| ckim-isaac | INDEL | * | HG002complexvar | het | 92.2376 | 90.0654 | 94.5171 | 48.6355 | 41621 | 4591 | 40028 | 2322 | 1017 | 43.7984 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2789 | 94.7020 | 100.0000 | 48.6301 | 143 | 8 | 150 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 86.7813 | 76.7925 | 99.7573 | 48.6284 | 407 | 123 | 411 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.5122 | 99.2515 | 99.7743 | 48.6278 | 1326 | 10 | 1326 | 3 | 0 | 0.0000 | |