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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73901-73950 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7633 | 97.2714 | 98.2602 | 58.6360 | 30551 | 857 | 30554 | 541 | 494 | 91.3124 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7633 | 97.2714 | 98.2602 | 58.6360 | 30551 | 857 | 30554 | 541 | 494 | 91.3124 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 93.9659 | 93.6956 | 94.2379 | 71.6964 | 60369 | 4062 | 60447 | 3696 | 3375 | 91.3149 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 52.0907 | 81.7259 | 38.2284 | 55.9096 | 161 | 36 | 164 | 265 | 242 | 91.3208 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 75.6523 | 61.3266 | 98.7108 | 36.0827 | 8441 | 5323 | 7963 | 104 | 95 | 91.3462 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6511 | 96.9845 | 98.3269 | 41.1237 | 23800 | 740 | 23802 | 405 | 370 | 91.3580 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.9301 | 95.6489 | 98.2460 | 63.4208 | 13981 | 636 | 13611 | 243 | 222 | 91.3580 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 38.3260 | 42.4390 | 34.9398 | 82.2902 | 87 | 118 | 87 | 162 | 148 | 91.3580 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 38.3260 | 42.4390 | 34.9398 | 82.2902 | 87 | 118 | 87 | 162 | 148 | 91.3580 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.8900 | 46.6238 | 63.8393 | 72.5153 | 145 | 166 | 143 | 81 | 74 | 91.3580 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.0966 | 87.6813 | 88.5158 | 38.7217 | 21517 | 3023 | 21589 | 2801 | 2559 | 91.3602 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 92.4416 | 88.7728 | 96.4267 | 49.8323 | 5266 | 666 | 3751 | 139 | 127 | 91.3669 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.2884 | 84.6243 | 85.9630 | 70.3947 | 27073 | 4919 | 27454 | 4483 | 4096 | 91.3674 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 55.2299 | 52.5133 | 58.2428 | 71.2539 | 1870 | 1691 | 1876 | 1345 | 1229 | 91.3755 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7880 | 95.3926 | 96.1867 | 75.7339 | 1470 | 71 | 1463 | 58 | 53 | 91.3793 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.7237 | 93.5806 | 91.8824 | 43.4731 | 2624 | 180 | 2626 | 232 | 212 | 91.3793 | |
| anovak-vg | SNP | ti | map_l125_m2_e1 | homalt | 90.0123 | 82.2569 | 99.3822 | 67.2869 | 9425 | 2033 | 9330 | 58 | 53 | 91.3793 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.6745 | 96.2080 | 99.1864 | 53.3595 | 7104 | 280 | 7071 | 58 | 53 | 91.3793 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.2407 | 94.4809 | 96.0129 | 51.7704 | 13969 | 816 | 13967 | 580 | 530 | 91.3793 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 36.9586 | 26.4511 | 61.3160 | 39.5013 | 638 | 1774 | 1696 | 1070 | 978 | 91.4019 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.6855 | 91.2376 | 73.9439 | 67.5049 | 3686 | 354 | 4061 | 1431 | 1308 | 91.4046 | |
| gduggal-snapfb | INDEL | I1_5 | HG002compoundhet | homalt | 37.2562 | 91.1854 | 23.4106 | 77.1726 | 300 | 29 | 313 | 1024 | 936 | 91.4062 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0315 | 98.4878 | 97.5794 | 54.7750 | 6578 | 101 | 6571 | 163 | 149 | 91.4110 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.5844 | 94.0959 | 49.1648 | 73.3293 | 1275 | 80 | 1295 | 1339 | 1224 | 91.4115 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 42.4373 | 41.1000 | 43.8645 | 68.7909 | 4140 | 5933 | 4118 | 5270 | 4818 | 91.4231 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 54.1148 | 85.3960 | 39.6066 | 69.0608 | 3450 | 590 | 3443 | 5250 | 4800 | 91.4286 | |
| jlack-gatk | SNP | ti | HG002complexvar | homalt | 99.9491 | 99.9163 | 99.9819 | 18.2375 | 193301 | 162 | 193290 | 35 | 32 | 91.4286 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6252 | 94.1534 | 99.2303 | 30.5059 | 4493 | 279 | 4512 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | D16_PLUS | HG002complexvar | * | 93.9813 | 92.4528 | 95.5612 | 63.5376 | 1519 | 124 | 1507 | 70 | 64 | 91.4286 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.6947 | 87.3874 | 94.2623 | 81.0323 | 582 | 84 | 575 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.6947 | 87.3874 | 94.2623 | 81.0323 | 582 | 84 | 575 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002complexvar | * | 96.7965 | 95.1586 | 98.4917 | 56.6586 | 4560 | 232 | 4571 | 70 | 64 | 91.4286 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | * | 94.7100 | 90.6791 | 99.1159 | 32.9210 | 7958 | 818 | 7848 | 70 | 64 | 91.4286 | |
| cchapple-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.2958 | 98.2345 | 92.5278 | 57.6262 | 2170 | 39 | 2167 | 175 | 160 | 91.4286 | |
| anovak-vg | INDEL | * | map_l250_m1_e0 | homalt | 71.5666 | 73.3945 | 69.8276 | 95.2322 | 80 | 29 | 81 | 35 | 32 | 91.4286 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 90.2544 | 90.2041 | 90.3047 | 58.2659 | 663 | 72 | 652 | 70 | 64 | 91.4286 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.3685 | 96.3964 | 92.4242 | 70.2894 | 428 | 16 | 427 | 35 | 32 | 91.4286 | |
| ckim-dragen | INDEL | I1_5 | HG002compoundhet | het | 97.0139 | 98.3529 | 95.7108 | 85.3685 | 836 | 14 | 781 | 35 | 32 | 91.4286 | |
| ckim-dragen | SNP | * | map_l100_m1_e0 | homalt | 99.6437 | 99.4186 | 99.8698 | 55.6951 | 26846 | 157 | 26851 | 35 | 32 | 91.4286 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.0840 | 95.2463 | 98.9940 | 50.7712 | 3326 | 166 | 3444 | 35 | 32 | 91.4286 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.6206 | 85.4508 | 69.4444 | 82.3834 | 417 | 71 | 425 | 187 | 171 | 91.4439 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 50.6371 | 40.3001 | 68.1066 | 40.7912 | 2310 | 3422 | 6748 | 3160 | 2890 | 91.4557 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.7128 | 97.1052 | 98.3282 | 43.4107 | 3757 | 112 | 11704 | 199 | 182 | 91.4573 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e0 | homalt | 54.3759 | 43.3391 | 72.9548 | 76.3218 | 758 | 991 | 758 | 281 | 257 | 91.4591 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.1465 | 96.4646 | 91.9371 | 77.3623 | 2101 | 77 | 1870 | 164 | 150 | 91.4634 | |
| asubramanian-gatk | INDEL | * | * | hetalt | 95.6373 | 92.5665 | 98.9188 | 59.3274 | 23361 | 1876 | 23605 | 258 | 236 | 91.4729 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.9393 | 99.0763 | 96.8281 | 71.9883 | 5792 | 54 | 5739 | 188 | 172 | 91.4894 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.9393 | 99.0763 | 96.8281 | 71.9883 | 5792 | 54 | 5739 | 188 | 172 | 91.4894 | |