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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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73401-73450 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 71.4933 | 61.7706 | 84.8485 | 75.6702 | 307 | 190 | 308 | 55 | 54 | 98.1818 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m0_e0 | het | 58.2441 | 41.7178 | 96.4539 | 77.8302 | 136 | 190 | 136 | 5 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 83.0586 | 77.6471 | 89.2809 | 34.5471 | 660 | 190 | 658 | 79 | 79 | 100.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_siren | het | 45.1091 | 32.1429 | 75.6098 | 90.5093 | 90 | 190 | 62 | 20 | 2 | 10.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 11.5108 | 7.7670 | 22.2222 | 93.9481 | 16 | 190 | 14 | 49 | 4 | 8.1633 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7305 | 89.6851 | 98.1581 | 66.4808 | 1652 | 190 | 1652 | 31 | 17 | 54.8387 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | homalt | 99.0703 | 98.3146 | 99.8379 | 69.3588 | 11083 | 190 | 11083 | 18 | 13 | 72.2222 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e0 | * | 99.4612 | 99.4035 | 99.5190 | 75.5411 | 31662 | 190 | 31656 | 153 | 23 | 15.0327 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 82.4610 | 70.7692 | 98.7805 | 27.7533 | 460 | 190 | 486 | 6 | 5 | 83.3333 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3901 | 92.1195 | 96.7756 | 58.9739 | 2221 | 190 | 2221 | 74 | 70 | 94.5946 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.1575 | 94.0810 | 96.2589 | 56.4633 | 3020 | 190 | 3242 | 126 | 118 | 93.6508 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 11.3706 | 7.7670 | 21.2121 | 59.0062 | 16 | 190 | 14 | 52 | 10 | 19.2308 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6772 | 96.0184 | 99.3942 | 25.6555 | 4582 | 190 | 4594 | 28 | 27 | 96.4286 | |
| jmaeng-gatk | SNP | ti | HG002compoundhet | * | 99.3792 | 98.9129 | 99.8498 | 36.3432 | 17288 | 190 | 17288 | 26 | 22 | 84.6154 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e1 | * | 92.9861 | 91.4607 | 94.5632 | 88.4195 | 2035 | 190 | 2035 | 117 | 81 | 69.2308 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 34.5038 | 68.9034 | 23.0141 | 48.5298 | 421 | 190 | 423 | 1415 | 1414 | 99.9293 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 57.9234 | 68.4909 | 50.1809 | 63.0076 | 413 | 190 | 416 | 413 | 407 | 98.5472 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e1 | het | 94.1266 | 94.2407 | 94.0127 | 92.2458 | 3109 | 190 | 3109 | 198 | 56 | 28.2828 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | * | 97.6888 | 96.0351 | 99.4005 | 50.9611 | 4602 | 190 | 4311 | 26 | 17 | 65.3846 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m1_e0 | het | 96.5578 | 93.5647 | 99.7488 | 79.9395 | 2777 | 191 | 2780 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.3153 | 97.1961 | 99.4606 | 33.3866 | 6621 | 191 | 6638 | 36 | 35 | 97.2222 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 15.3418 | 13.9640 | 17.0213 | 57.0776 | 31 | 191 | 32 | 156 | 154 | 98.7179 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | * | 99.4641 | 99.4070 | 99.5212 | 75.5898 | 32019 | 191 | 32013 | 154 | 23 | 14.9351 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.9370 | 95.9975 | 99.9565 | 25.8751 | 4581 | 191 | 4593 | 2 | 1 | 50.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.6238 | 92.9702 | 96.3373 | 84.5241 | 2526 | 191 | 2525 | 96 | 61 | 63.5417 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.5573 | 95.0633 | 84.6541 | 45.2951 | 3678 | 191 | 10586 | 1919 | 912 | 47.5248 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m1_e0 | * | 75.9428 | 62.2530 | 97.3510 | 93.4867 | 315 | 191 | 441 | 12 | 8 | 66.6667 | |
| rpoplin-dv42 | SNP | tv | map_l100_m1_e0 | * | 99.2751 | 99.2204 | 99.3298 | 64.0760 | 24310 | 191 | 24306 | 164 | 80 | 48.7805 | |
| rpoplin-dv42 | SNP | tv | map_l100_m2_e0 | * | 99.2885 | 99.2370 | 99.3401 | 66.0825 | 24842 | 191 | 24838 | 165 | 80 | 48.4848 | |
| rpoplin-dv42 | SNP | tv | map_l100_m2_e1 | * | 99.2936 | 99.2446 | 99.3427 | 66.1225 | 25092 | 191 | 25088 | 166 | 80 | 48.1928 | |
| gduggal-bwafb | SNP | ti | map_l125_m0_e0 | * | 98.6735 | 98.5034 | 98.8442 | 76.2289 | 12571 | 191 | 12571 | 147 | 47 | 31.9728 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | homalt | 74.1328 | 83.6612 | 66.5529 | 48.6865 | 978 | 191 | 975 | 490 | 482 | 98.3673 | |
| gduggal-snapvard | INDEL | * | segdup | homalt | 87.9737 | 80.1042 | 97.5580 | 91.2900 | 769 | 191 | 799 | 20 | 20 | 100.0000 | |
| gduggal-snapfb | SNP | tv | map_l150_m1_e0 | homalt | 97.1916 | 95.1597 | 99.3122 | 81.5059 | 3755 | 191 | 3754 | 26 | 6 | 23.0769 | |
| gduggal-snapplat | INDEL | * | map_l125_m2_e1 | homalt | 84.7865 | 75.3230 | 96.9697 | 90.1183 | 583 | 191 | 640 | 20 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | * | 99.6397 | 99.4275 | 99.8527 | 57.1222 | 33172 | 191 | 33219 | 49 | 39 | 79.5918 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1774 | 98.9300 | 99.4261 | 58.2999 | 17660 | 191 | 17671 | 102 | 10 | 9.8039 | |
| anovak-vg | SNP | * | map_l250_m0_e0 | homalt | 81.4814 | 69.6343 | 98.1859 | 93.8468 | 438 | 191 | 433 | 8 | 6 | 75.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6351 | 98.0293 | 99.2485 | 64.1671 | 9501 | 191 | 9509 | 72 | 32 | 44.4444 | |
| egarrison-hhga | INDEL | D1_5 | HG002compoundhet | het | 51.9684 | 88.9468 | 36.7077 | 50.8341 | 1537 | 191 | 1969 | 3395 | 3320 | 97.7909 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 57.3083 | 74.2240 | 46.6718 | 65.6383 | 550 | 191 | 603 | 689 | 262 | 38.0261 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.6054 | 94.5304 | 98.7736 | 51.8161 | 3301 | 191 | 3302 | 41 | 34 | 82.9268 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 32.7016 | 22.2672 | 61.5385 | 82.5000 | 55 | 192 | 56 | 35 | 29 | 82.8571 | |
| ckim-dragen | SNP | ti | map_siren | homalt | 99.7132 | 99.4936 | 99.9338 | 47.4447 | 37724 | 192 | 37726 | 25 | 23 | 92.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.9679 | 72.4534 | 86.7698 | 52.5285 | 505 | 192 | 505 | 77 | 76 | 98.7013 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 11.8946 | 6.7961 | 47.6190 | 65.8537 | 14 | 192 | 20 | 22 | 20 | 90.9091 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 81.0877 | 69.6203 | 97.0779 | 42.3221 | 440 | 192 | 299 | 9 | 9 | 100.0000 | |
| gduggal-bwafb | SNP | * | HG002compoundhet | het | 96.7961 | 98.6458 | 95.0145 | 51.0584 | 13986 | 192 | 14103 | 740 | 130 | 17.5676 | |
| eyeh-varpipe | SNP | * | map_l100_m1_e0 | * | 98.6894 | 99.7348 | 97.6657 | 67.8112 | 72211 | 192 | 69996 | 1673 | 51 | 3.0484 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.1623 | 100.0000 | 1102 | 192 | 0 | 0 | 0 | ||||