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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55701-55750 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | I6_15 | HG002compoundhet | het | 24.7604 | 59.6154 | 15.6250 | 55.8621 | 124 | 84 | 70 | 378 | 375 | 99.2063 | |
| ckim-gatk | INDEL | D6_15 | * | * | 98.2230 | 97.9802 | 98.4670 | 55.8597 | 25565 | 527 | 25564 | 398 | 344 | 86.4322 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8527 | 99.9044 | 97.8230 | 55.8586 | 8358 | 8 | 8358 | 186 | 184 | 98.9247 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.7368 | 98.6632 | 98.8105 | 55.8582 | 11145 | 151 | 11131 | 134 | 133 | 99.2537 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.6355 | 82.0408 | 50.6542 | 55.8581 | 402 | 88 | 542 | 528 | 513 | 97.1591 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 69.0901 | 55.6851 | 90.9953 | 55.8577 | 191 | 152 | 192 | 19 | 18 | 94.7368 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4099 | 99.4850 | 99.3350 | 55.8574 | 10045 | 52 | 9410 | 63 | 21 | 33.3333 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8983 | 96.2840 | 99.5676 | 55.8569 | 5519 | 213 | 5527 | 24 | 18 | 75.0000 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | het | 98.0320 | 96.4691 | 99.6463 | 55.8548 | 4508 | 165 | 4508 | 16 | 9 | 56.2500 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1504 | 99.7689 | 96.5836 | 55.8513 | 9499 | 22 | 9499 | 336 | 332 | 98.8095 | |
| cchapple-custom | SNP | * | map_l100_m1_e0 | homalt | 98.7154 | 97.4707 | 99.9924 | 55.8509 | 26320 | 683 | 26310 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3969 | 99.2733 | 95.5900 | 55.8480 | 3142 | 23 | 3143 | 145 | 133 | 91.7241 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2206 | 92.5954 | 97.9989 | 55.8475 | 3689 | 295 | 3722 | 76 | 35 | 46.0526 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7571 | 99.6017 | 99.9130 | 55.8468 | 25258 | 101 | 25261 | 22 | 14 | 63.6364 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 91.9906 | 90.0000 | 94.0711 | 55.8464 | 243 | 27 | 238 | 15 | 3 | 20.0000 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 60.5878 | 57.3058 | 64.2686 | 55.8452 | 6581 | 4903 | 7763 | 4316 | 3401 | 78.7998 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2034 | 96.5701 | 97.8450 | 55.8440 | 36602 | 1300 | 36414 | 802 | 774 | 96.5087 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1456 | 99.7794 | 96.5643 | 55.8438 | 9500 | 21 | 9500 | 338 | 334 | 98.8166 | |
| ckim-vqsr | INDEL | I1_5 | HG002compoundhet | hetalt | 95.5975 | 91.5988 | 99.9612 | 55.8418 | 10238 | 939 | 10299 | 4 | 4 | 100.0000 | |
| gduggal-bwavard | SNP | tv | HG002compoundhet | het | 81.7704 | 86.9463 | 77.1761 | 55.8414 | 4063 | 610 | 4504 | 1332 | 1169 | 87.7628 | |
| hfeng-pmm3 | INDEL | * | HG002complexvar | homalt | 99.7967 | 99.8594 | 99.7340 | 55.8371 | 26989 | 38 | 26999 | 72 | 66 | 91.6667 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.1490 | 96.3652 | 100.0000 | 55.8357 | 1087 | 41 | 1086 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 78.1643 | 64.5833 | 98.9779 | 55.8315 | 589 | 323 | 581 | 6 | 5 | 83.3333 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.3063 | 91.2223 | 99.7730 | 55.8289 | 10538 | 1014 | 10551 | 24 | 18 | 75.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.3063 | 91.2223 | 99.7730 | 55.8289 | 10538 | 1014 | 10551 | 24 | 18 | 75.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 92.7463 | 87.9765 | 98.0630 | 55.8289 | 300 | 41 | 405 | 8 | 8 | 100.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.3706 | 96.6600 | 84.8496 | 55.8282 | 9203 | 318 | 9196 | 1642 | 1614 | 98.2948 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9159 | 99.9115 | 99.9203 | 55.8220 | 11286 | 10 | 11286 | 9 | 9 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 95.6413 | 91.6793 | 99.9612 | 55.8202 | 10247 | 930 | 10308 | 4 | 4 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.9010 | 92.8196 | 92.9825 | 55.8140 | 530 | 41 | 530 | 40 | 38 | 95.0000 | |
| qzeng-custom | INDEL | I1_5 | tech_badpromoters | * | 100.0000 | 100.0000 | 100.0000 | 55.8140 | 22 | 0 | 19 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0901 | 99.5957 | 98.5896 | 55.8133 | 6159 | 25 | 6291 | 90 | 2 | 2.2222 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | hetalt | 96.5751 | 93.3769 | 100.0000 | 55.8131 | 1142 | 81 | 1182 | 0 | 0 | ||
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.5378 | 99.9176 | 97.1955 | 55.8074 | 1213 | 1 | 1213 | 35 | 35 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_siren | * | 99.6246 | 99.3686 | 99.8818 | 55.8072 | 45640 | 290 | 45640 | 54 | 25 | 46.2963 | |
| cchapple-custom | INDEL | D1_5 | * | * | 99.4223 | 99.1584 | 99.6877 | 55.8052 | 145510 | 1235 | 145535 | 456 | 300 | 65.7895 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3863 | 99.1243 | 99.6497 | 55.8050 | 566 | 5 | 569 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8126 | 99.7437 | 99.8815 | 55.8039 | 25294 | 65 | 25297 | 30 | 17 | 56.6667 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | het | 99.7370 | 99.6292 | 99.8451 | 55.8027 | 20688 | 77 | 20632 | 32 | 11 | 34.3750 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5088 | 99.0743 | 99.9471 | 55.8025 | 17018 | 159 | 17015 | 9 | 6 | 66.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002compoundhet | hetalt | 95.4154 | 91.2409 | 99.9902 | 55.7998 | 10198 | 979 | 10253 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7712 | 99.7476 | 99.7949 | 55.7977 | 25295 | 64 | 25298 | 52 | 25 | 48.0769 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7559 | 99.5579 | 99.9547 | 55.7919 | 11035 | 49 | 11032 | 5 | 2 | 40.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2451 | 95.3502 | 99.2167 | 55.7798 | 8018 | 391 | 8107 | 64 | 58 | 90.6250 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 93.4760 | 95.9242 | 91.1498 | 55.7793 | 14168 | 602 | 14151 | 1374 | 617 | 44.9054 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8937 | 99.8407 | 99.9468 | 55.7785 | 11278 | 18 | 11278 | 6 | 6 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.7321 | 22.6516 | 58.9793 | 55.7780 | 1565 | 5344 | 1537 | 1069 | 1020 | 95.4163 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 53.8310 | 52.3323 | 55.4180 | 55.7723 | 19835 | 18067 | 20150 | 16210 | 13033 | 80.4010 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 46.6061 | 61.8182 | 37.4023 | 55.7713 | 238 | 147 | 622 | 1041 | 745 | 71.5658 | |
| gduggal-snapvard | SNP | tv | tech_badpromoters | * | 85.8248 | 84.7222 | 86.9565 | 55.7692 | 61 | 11 | 60 | 9 | 1 | 11.1111 | |