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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12101-12150 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.5168 | 96.7193 | 98.3276 | 70.0415 | 4835 | 164 | 4821 | 82 | 63 | 76.8293 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4223 | 99.8206 | 99.0272 | 61.0885 | 8345 | 15 | 8347 | 82 | 80 | 97.5610 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4223 | 99.8206 | 99.0272 | 61.0885 | 8345 | 15 | 8347 | 82 | 80 | 97.5610 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m2_e1 | het | 99.0241 | 98.3236 | 99.7346 | 57.0635 | 30441 | 519 | 30443 | 81 | 7 | 8.6420 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | * | 92.6847 | 91.3352 | 94.0746 | 90.7989 | 1286 | 122 | 1286 | 81 | 52 | 64.1975 | |
| 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 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.0853 | 96.5607 | 99.6588 | 36.0406 | 23696 | 844 | 23662 | 81 | 58 | 71.6049 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 64.2536 | 98.2249 | 47.7419 | 79.1667 | 166 | 3 | 74 | 81 | 79 | 97.5309 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.4592 | 94.7518 | 94.1685 | 74.3063 | 1336 | 74 | 1308 | 81 | 70 | 86.4198 | |
| hfeng-pmm1 | SNP | ti | map_l100_m2_e0 | het | 99.3987 | 99.0660 | 99.7336 | 64.8032 | 30336 | 286 | 30329 | 81 | 20 | 24.6914 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4122 | 99.6041 | 99.2209 | 44.4011 | 10316 | 41 | 10316 | 81 | 79 | 97.5309 | |
| hfeng-pmm3 | SNP | * | HG002complexvar | het | 99.8290 | 99.6758 | 99.9825 | 18.2080 | 463988 | 1509 | 463859 | 81 | 16 | 19.7531 | |
| hfeng-pmm3 | SNP | ti | map_l125_m2_e0 | het | 99.4510 | 99.3325 | 99.5698 | 72.2770 | 18750 | 126 | 18746 | 81 | 8 | 9.8765 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e0 | * | 98.0365 | 97.7037 | 98.3715 | 89.9163 | 4893 | 115 | 4893 | 81 | 24 | 29.6296 | |
| gduggal-bwaplat | SNP | ti | map_l100_m0_e0 | * | 72.8908 | 57.5582 | 99.3581 | 86.0136 | 12531 | 9240 | 12537 | 81 | 26 | 32.0988 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 84.1308 | 76.7376 | 93.1005 | 65.8125 | 1082 | 328 | 1093 | 81 | 21 | 25.9259 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 52.2084 | 35.8340 | 96.1392 | 47.0737 | 1710 | 3062 | 2017 | 81 | 81 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 13.8298 | 27.6923 | 0 | 0 | 13 | 81 | 68 | 83.9506 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.8760 | 89.1186 | 99.1699 | 39.2139 | 3448 | 421 | 9677 | 81 | 70 | 86.4198 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6338 | 95.8574 | 99.4771 | 65.4659 | 15411 | 666 | 15411 | 81 | 71 | 87.6543 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6338 | 95.8574 | 99.4771 | 65.4659 | 15411 | 666 | 15411 | 81 | 71 | 87.6543 | |
| ghariani-varprowl | INDEL | * | map_l150_m0_e0 | het | 88.0637 | 97.3607 | 80.3874 | 95.1486 | 332 | 9 | 332 | 81 | 18 | 22.2222 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 82.6345 | 81.9473 | 83.3333 | 60.9010 | 404 | 89 | 405 | 81 | 78 | 96.2963 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.9388 | 97.7778 | 76.6571 | 63.2415 | 264 | 6 | 266 | 81 | 78 | 96.2963 | |
| gduggal-snapvard | INDEL | I1_5 | segdup | * | 91.3324 | 90.4627 | 92.2190 | 95.0889 | 958 | 101 | 960 | 81 | 68 | 83.9506 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9882 | 96.8323 | 99.1721 | 49.4419 | 9782 | 320 | 9703 | 81 | 32 | 39.5062 | |
| gduggal-snapplat | SNP | tv | segdup | * | 98.7367 | 98.4294 | 99.0458 | 94.5607 | 8398 | 134 | 8408 | 81 | 13 | 16.0494 | |
| gduggal-snapvard | INDEL | * | func_cds | * | 83.0794 | 82.2472 | 83.9286 | 43.6242 | 366 | 79 | 423 | 81 | 65 | 80.2469 | |
| gduggal-snapvard | INDEL | C1_5 | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 49.0566 | 95.2861 | 0 | 0 | 78 | 81 | 9 | 11.1111 | |
| cchapple-custom | INDEL | * | map_l150_m2_e0 | * | 95.3298 | 96.2358 | 94.4406 | 89.8140 | 1355 | 53 | 1376 | 81 | 16 | 19.7531 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | * | 99.5809 | 99.4065 | 99.7559 | 56.6825 | 33165 | 198 | 33105 | 81 | 67 | 82.7160 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.2927 | 99.2413 | 99.3442 | 65.4836 | 12426 | 95 | 12270 | 81 | 75 | 92.5926 | |
| ckim-dragen | INDEL | * | map_l125_m2_e0 | * | 96.6158 | 96.9035 | 96.3299 | 89.2603 | 2128 | 68 | 2126 | 81 | 13 | 16.0494 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e1 | het | 72.4170 | 65.5172 | 80.9412 | 93.9878 | 342 | 180 | 344 | 81 | 22 | 27.1605 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 62.9804 | 73.2283 | 55.2486 | 68.8468 | 93 | 34 | 100 | 81 | 11 | 13.5802 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 12.2983 | 7.6493 | 31.3559 | 74.7323 | 41 | 495 | 37 | 81 | 73 | 90.1235 | |
| ciseli-custom | INDEL | * | map_l150_m2_e1 | homalt | 63.5484 | 54.2683 | 76.6571 | 91.7065 | 267 | 225 | 266 | 81 | 59 | 72.8395 | |
| bgallagher-sentieon | SNP | tv | HG002complexvar | * | 99.9492 | 99.9313 | 99.9671 | 22.0213 | 245983 | 169 | 245892 | 81 | 31 | 38.2716 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | * | 98.3380 | 96.7457 | 99.9835 | 17.8536 | 491890 | 16546 | 491830 | 81 | 36 | 44.4444 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0572 | 98.8725 | 99.2426 | 41.5382 | 10611 | 121 | 10614 | 81 | 2 | 2.4691 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.7119 | 72.4534 | 86.1538 | 53.4606 | 505 | 192 | 504 | 81 | 80 | 98.7654 | |
| anovak-vg | INDEL | D16_PLUS | HG002complexvar | homalt | 75.3150 | 76.8166 | 73.8710 | 63.3570 | 222 | 67 | 229 | 81 | 59 | 72.8395 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.3363 | 98.8920 | 81.4645 | 58.0614 | 357 | 4 | 356 | 81 | 1 | 1.2346 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 78.1102 | 88.8889 | 69.6629 | 87.0262 | 112 | 14 | 186 | 81 | 8 | 9.8765 | |
| qzeng-custom | INDEL | * | map_l150_m2_e1 | * | 81.2984 | 71.5775 | 94.0746 | 94.0057 | 1030 | 409 | 1286 | 81 | 39 | 48.1481 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | * | 98.0840 | 96.8760 | 99.3225 | 65.2361 | 11970 | 386 | 11875 | 81 | 56 | 69.1358 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 0.0000 | 50.0000 | 0.0000 | 96.5981 | 1 | 1 | 0 | 81 | 0 | 0.0000 | |
| qzeng-custom | SNP | ti | map_l100_m2_e0 | homalt | 87.9965 | 78.9175 | 99.4361 | 59.4553 | 14449 | 3860 | 14284 | 81 | 75 | 92.5926 | |
| qzeng-custom | SNP | ti | map_l100_m2_e1 | homalt | 88.0999 | 79.0797 | 99.4428 | 59.4081 | 14625 | 3869 | 14457 | 81 | 75 | 92.5926 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.3110 | 82.9974 | 92.0976 | 77.0179 | 947 | 194 | 944 | 81 | 55 | 67.9012 | |