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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10151-10200 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0051 | 98.0989 | 99.9282 | 41.2255 | 5573 | 108 | 5569 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8033 | 98.0989 | 99.5179 | 50.4556 | 5573 | 108 | 5573 | 27 | 24 | 88.8889 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | * | * | 92.6024 | 87.3765 | 98.4933 | 47.8680 | 5572 | 805 | 5491 | 84 | 71 | 84.5238 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 94.5047 | 0.0000 | 0.0000 | 5572 | 324 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 94.5047 | 0.0000 | 0.0000 | 5572 | 324 | 0 | 0 | 0 | ||
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.1401 | 94.4708 | 99.9645 | 35.6743 | 5570 | 326 | 5631 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.1401 | 94.4708 | 99.9645 | 35.6743 | 5570 | 326 | 5631 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.9360 | 95.2617 | 96.6200 | 68.1344 | 5569 | 277 | 5517 | 193 | 187 | 96.8912 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.9360 | 95.2617 | 96.6200 | 68.1344 | 5569 | 277 | 5517 | 193 | 187 | 96.8912 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.6238 | 99.4640 | 97.7977 | 72.6194 | 5567 | 30 | 5551 | 125 | 111 | 88.8000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.2832 | 91.6502 | 99.2161 | 44.8245 | 5565 | 507 | 5569 | 44 | 30 | 68.1818 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.6403 | 99.3747 | 97.9167 | 72.3397 | 5562 | 35 | 5546 | 118 | 106 | 89.8305 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2308 | 97.0167 | 99.4755 | 56.4489 | 5561 | 171 | 5690 | 30 | 15 | 50.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.6951 | 91.4187 | 91.9731 | 70.0049 | 5561 | 522 | 5603 | 489 | 348 | 71.1656 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5086 | 99.3568 | 97.6748 | 72.1675 | 5561 | 36 | 5545 | 132 | 121 | 91.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.4691 | 95.1249 | 97.8519 | 68.0089 | 5561 | 285 | 5512 | 121 | 112 | 92.5620 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.4691 | 95.1249 | 97.8519 | 68.0089 | 5561 | 285 | 5512 | 121 | 112 | 92.5620 | |
| gduggal-bwaplat | INDEL | * | map_siren | * | 85.3786 | 75.0202 | 99.0556 | 89.6958 | 5559 | 1851 | 5559 | 53 | 26 | 49.0566 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2667 | 99.3211 | 99.2123 | 71.8135 | 5559 | 38 | 5542 | 44 | 35 | 79.5455 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5692 | 99.3032 | 97.8460 | 72.1465 | 5558 | 39 | 5542 | 122 | 111 | 90.9836 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5688 | 99.2675 | 97.8799 | 72.6755 | 5556 | 41 | 5540 | 120 | 110 | 91.6667 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3090 | 96.8597 | 99.8023 | 58.5209 | 5552 | 180 | 5553 | 11 | 9 | 81.8182 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | * | 78.9708 | 83.7129 | 74.7373 | 81.6028 | 5551 | 1080 | 5547 | 1875 | 540 | 28.8000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9771 | 94.1316 | 100.0000 | 39.8864 | 5550 | 346 | 5608 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9771 | 94.1316 | 100.0000 | 39.8864 | 5550 | 346 | 5608 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 40.8104 | 37.5245 | 44.7270 | 52.3629 | 5548 | 9237 | 5505 | 6803 | 6744 | 99.1327 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 78.6552 | 86.4019 | 72.1833 | 72.7812 | 5547 | 873 | 5561 | 2143 | 2067 | 96.4536 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 78.6552 | 86.4019 | 72.1833 | 72.7812 | 5547 | 873 | 5561 | 2143 | 2067 | 96.4536 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3384 | 99.0709 | 97.6165 | 72.3626 | 5545 | 52 | 5529 | 135 | 121 | 89.6296 | |
| eyeh-varpipe | INDEL | D6_15 | * | homalt | 70.9562 | 87.6541 | 59.6022 | 44.0635 | 5545 | 781 | 5543 | 3757 | 3655 | 97.2851 | |
| ckim-isaac | SNP | * | map_l150_m2_e1 | homalt | 63.8200 | 46.8842 | 99.9099 | 70.9059 | 5545 | 6282 | 5545 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.5775 | 93.3816 | 100.0000 | 61.6574 | 5545 | 393 | 5580 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2369 | 96.7202 | 99.8020 | 58.3539 | 5544 | 188 | 5545 | 11 | 9 | 81.8182 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4688 | 94.0129 | 99.0564 | 39.7188 | 5543 | 353 | 5564 | 53 | 46 | 86.7925 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4688 | 94.0129 | 99.0564 | 39.7188 | 5543 | 353 | 5564 | 53 | 46 | 86.7925 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1175 | 98.9995 | 99.2358 | 63.1487 | 5541 | 56 | 5454 | 42 | 17 | 40.4762 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8135 | 98.9459 | 94.7711 | 71.2462 | 5538 | 59 | 5528 | 305 | 297 | 97.3770 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8071 | 93.8433 | 99.9643 | 38.7051 | 5533 | 363 | 5593 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8071 | 93.8433 | 99.9643 | 38.7051 | 5533 | 363 | 5593 | 2 | 2 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l100_m0_e0 | het | 85.0006 | 76.5993 | 95.4718 | 87.4215 | 5532 | 1690 | 5524 | 262 | 216 | 82.4427 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8058 | 93.8094 | 100.0000 | 40.1072 | 5531 | 365 | 5588 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8058 | 93.8094 | 100.0000 | 40.1072 | 5531 | 365 | 5588 | 0 | 0 | ||
| ckim-isaac | SNP | tv | map_l150_m1_e0 | * | 67.1487 | 50.6415 | 99.6215 | 77.0250 | 5526 | 5386 | 5527 | 21 | 7 | 33.3333 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7999 | 98.6779 | 98.9222 | 68.1958 | 5523 | 74 | 5507 | 60 | 53 | 88.3333 | |
| jmaeng-gatk | SNP | tv | map_l150_m2_e1 | het | 84.1017 | 75.1633 | 95.4530 | 91.0507 | 5523 | 1825 | 5521 | 263 | 7 | 2.6616 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8983 | 96.2840 | 99.5676 | 55.8569 | 5519 | 213 | 5527 | 24 | 18 | 75.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.9315 | 98.6064 | 93.3978 | 71.5802 | 5519 | 78 | 5503 | 389 | 233 | 59.8972 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9665 | 96.2317 | 99.7649 | 58.1536 | 5516 | 216 | 5517 | 13 | 11 | 84.6154 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6618 | 93.5550 | 99.9821 | 38.6326 | 5516 | 380 | 5573 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6618 | 93.5550 | 99.9821 | 38.6326 | 5516 | 380 | 5573 | 1 | 1 | 100.0000 | |