PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59901-59950 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I1_5 | tech_badpromoters | het | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 8 | 0 | 8 | 0 | 0 | ||
| astatham-gatk | SNP | ti | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 8 | 0 | 8 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | tech_badpromoters | het | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 8 | 0 | 8 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 8 | 0 | 8 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | tech_badpromoters | het | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 8 | 0 | 8 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | * | func_cds | het | 99.0697 | 99.0654 | 99.0741 | 46.6667 | 212 | 2 | 214 | 2 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 77.3064 | 63.5256 | 98.7224 | 46.6579 | 1982 | 1138 | 2009 | 26 | 26 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | HG002compoundhet | * | 96.9561 | 94.2396 | 99.8337 | 46.6519 | 8409 | 514 | 8407 | 14 | 7 | 50.0000 | |
| ckim-gatk | SNP | * | HG002compoundhet | het | 99.3772 | 99.0478 | 99.7088 | 46.6510 | 14043 | 135 | 14041 | 41 | 28 | 68.2927 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002compoundhet | hetalt | 94.3857 | 90.2532 | 98.9147 | 46.6501 | 1889 | 204 | 1914 | 21 | 21 | 100.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.9788 | 98.1646 | 99.8066 | 46.6460 | 1551 | 29 | 1548 | 3 | 1 | 33.3333 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.4464 | 92.3899 | 98.7120 | 46.6442 | 3630 | 299 | 3602 | 47 | 34 | 72.3404 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.8607 | 94.4535 | 99.3939 | 46.6406 | 9894 | 581 | 10167 | 62 | 61 | 98.3871 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.4845 | 74.4341 | 85.2701 | 46.6287 | 28212 | 9690 | 32580 | 5628 | 3335 | 59.2573 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7270 | 99.6589 | 99.7951 | 46.6278 | 1461 | 5 | 1461 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0250 | 97.6820 | 98.3704 | 46.6267 | 4509 | 107 | 4467 | 74 | 19 | 25.6757 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 22.7618 | 14.1194 | 58.6792 | 46.6264 | 97 | 590 | 311 | 219 | 217 | 99.0868 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.4421 | 98.3051 | 98.5795 | 46.6205 | 2436 | 42 | 2429 | 35 | 6 | 17.1429 | |
| anovak-vg | SNP | * | HG002compoundhet | het | 78.0560 | 77.3875 | 78.7362 | 46.6128 | 10972 | 3206 | 12323 | 3328 | 2553 | 76.7127 | |
| asubramanian-gatk | SNP | * | HG002compoundhet | het | 97.7049 | 96.5369 | 98.9015 | 46.6042 | 13687 | 491 | 13685 | 152 | 23 | 15.1316 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 72.8990 | 58.1328 | 97.7209 | 46.5971 | 2223 | 1601 | 2101 | 49 | 43 | 87.7551 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.9546 | 88.8056 | 72.7080 | 46.5949 | 9242 | 1165 | 9596 | 3602 | 1710 | 47.4736 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8468 | 99.7812 | 99.9125 | 46.5872 | 2280 | 5 | 2283 | 2 | 0 | 0.0000 | |
| ciseli-custom | SNP | * | HG002compoundhet | * | 73.2436 | 85.0050 | 64.3413 | 46.5864 | 21950 | 3872 | 21988 | 12186 | 1203 | 9.8720 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 65.4311 | 59.8361 | 72.1805 | 46.5863 | 73 | 49 | 96 | 37 | 37 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 46.5839 | 85 | 0 | 86 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 46.5839 | 85 | 0 | 86 | 0 | 0 | ||
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 46.5753 | 858 | 0 | 858 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 46.5753 | 858 | 0 | 858 | 0 | 0 | ||
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.7728 | 88.5693 | 93.0888 | 46.5749 | 1170 | 151 | 3071 | 228 | 79 | 34.6491 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.3228 | 88.0846 | 94.8081 | 46.5735 | 2166 | 293 | 7140 | 391 | 343 | 87.7238 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6147 | 97.5887 | 99.6624 | 46.5729 | 1457 | 36 | 1476 | 5 | 5 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | HG002complexvar | homalt | 99.1245 | 98.9887 | 99.2607 | 46.5706 | 13312 | 136 | 13292 | 99 | 61 | 61.6162 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9360 | 95.1324 | 98.8093 | 46.5673 | 13114 | 671 | 13112 | 158 | 151 | 95.5696 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 89.0808 | 82.0000 | 97.5000 | 46.5649 | 41 | 9 | 273 | 7 | 5 | 71.4286 | |
| ckim-isaac | SNP | * | map_siren | homalt | 81.0505 | 68.1522 | 99.9707 | 46.5592 | 37590 | 17566 | 37591 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.9807 | 96.8504 | 93.1818 | 46.5587 | 123 | 4 | 123 | 9 | 8 | 88.8889 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.2425 | 97.6560 | 98.8360 | 46.5565 | 17831 | 428 | 17832 | 210 | 208 | 99.0476 | |
| egarrison-hhga | SNP | ti | tech_badpromoters | * | 100.0000 | 100.0000 | 100.0000 | 46.5409 | 85 | 0 | 85 | 0 | 0 | ||
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.3567 | 89.4171 | 99.8741 | 46.5320 | 1580 | 187 | 1586 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.7454 | 95.7670 | 99.8073 | 46.5308 | 4570 | 202 | 4661 | 9 | 9 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 49.6401 | 47.9452 | 51.4593 | 46.5298 | 420 | 456 | 670 | 632 | 480 | 75.9494 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.4490 | 99.4792 | 95.5000 | 46.5241 | 191 | 1 | 191 | 9 | 8 | 88.8889 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | HG002complexvar | het | 91.9911 | 86.1654 | 98.6616 | 46.5235 | 573 | 92 | 516 | 7 | 4 | 57.1429 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 37.5716 | 28.2822 | 55.9480 | 46.5176 | 1788 | 4534 | 2582 | 2033 | 1650 | 81.1608 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 37.5716 | 28.2822 | 55.9480 | 46.5176 | 1788 | 4534 | 2582 | 2033 | 1650 | 81.1608 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 97.5038 | 96.4789 | 98.5507 | 46.5116 | 137 | 5 | 136 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 97.5038 | 96.4789 | 98.5507 | 46.5116 | 137 | 5 | 136 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | SNP | ti | HG002complexvar | hetalt | 99.5169 | 99.5169 | 99.5169 | 46.5116 | 206 | 1 | 206 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 46.5116 | 22 | 3 | 23 | 0 | 0 | ||