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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13601-13650 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | ti | map_siren | homalt | 91.8305 | 84.9219 | 99.9627 | 53.3585 | 32199 | 5717 | 32193 | 12 | 11 | 91.6667 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7596 | 99.5574 | 99.9627 | 68.6053 | 5399 | 24 | 5353 | 2 | 2 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7596 | 99.5574 | 99.9627 | 68.6053 | 5399 | 24 | 5353 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | * | hetalt | 96.4031 | 93.0885 | 99.9625 | 39.0201 | 7960 | 591 | 8000 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6178 | 95.3805 | 99.9625 | 30.9240 | 10592 | 513 | 10671 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | I1_5 | * | hetalt | 97.2805 | 94.7387 | 99.9625 | 62.4322 | 10606 | 589 | 10669 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | * | hetalt | 97.1674 | 94.5243 | 99.9624 | 62.1019 | 10582 | 613 | 10645 | 4 | 4 | 100.0000 | |
| gduggal-snapfb | SNP | ti | func_cds | homalt | 99.9716 | 99.9810 | 99.9621 | 22.5825 | 5274 | 1 | 5274 | 2 | 1 | 50.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m1_e0 | homalt | 61.0965 | 43.9922 | 99.9620 | 75.5921 | 7901 | 10059 | 7901 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | * | hetalt | 95.7466 | 91.8723 | 99.9620 | 36.0612 | 7856 | 695 | 7896 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | INDEL | I1_5 | * | hetalt | 96.4303 | 93.1398 | 99.9619 | 60.7048 | 10427 | 768 | 10489 | 4 | 4 | 100.0000 | |
| cchapple-custom | SNP | ti | map_l150_m0_e0 | homalt | 97.5139 | 95.1829 | 99.9619 | 70.3118 | 2628 | 133 | 2627 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | * | hetalt | 95.5238 | 91.4630 | 99.9619 | 38.0544 | 7821 | 730 | 7861 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | * | map_l250_m2_e1 | homalt | 98.1075 | 96.3208 | 99.9618 | 85.0801 | 2618 | 100 | 2617 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | * | hetalt | 95.3960 | 91.2291 | 99.9618 | 38.0362 | 7801 | 750 | 7841 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9841 | 96.0831 | 99.9618 | 27.3710 | 5225 | 213 | 5236 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | SNP | ti | HG002complexvar | homalt | 99.9574 | 99.9530 | 99.9617 | 18.4113 | 193372 | 91 | 193367 | 74 | 72 | 97.2973 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | homalt | 99.5497 | 99.1413 | 99.9615 | 53.6591 | 10507 | 91 | 10381 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | * | hetalt | 97.0865 | 94.3724 | 99.9614 | 34.0075 | 7714 | 460 | 7763 | 3 | 2 | 66.6667 | |
| cchapple-custom | SNP | * | map_l250_m2_e0 | homalt | 98.1039 | 96.3142 | 99.9613 | 85.0046 | 2587 | 99 | 2586 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 95.6413 | 91.6793 | 99.9612 | 55.8202 | 10247 | 930 | 10308 | 4 | 4 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | * | hetalt | 96.8203 | 93.8708 | 99.9612 | 33.0763 | 7673 | 501 | 7722 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I1_5 | HG002compoundhet | hetalt | 95.5975 | 91.5988 | 99.9612 | 55.8418 | 10238 | 939 | 10299 | 4 | 4 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 96.8750 | 93.9737 | 99.9612 | 23.5381 | 2573 | 165 | 2575 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | * | hetalt | 95.4538 | 91.3354 | 99.9611 | 60.3706 | 10225 | 970 | 10283 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_siren | homalt | 91.1261 | 83.7262 | 99.9610 | 54.5250 | 46180 | 8976 | 46171 | 18 | 18 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0437 | 94.2921 | 99.9608 | 30.2580 | 7599 | 460 | 7647 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0437 | 94.2921 | 99.9608 | 30.2580 | 7599 | 460 | 7647 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | SNP | tv | HG002complexvar | het | 99.8928 | 99.8249 | 99.9608 | 21.2882 | 150467 | 264 | 150382 | 59 | 46 | 77.9661 | |
| asubramanian-gatk | SNP | * | HG002complexvar | homalt | 98.0724 | 96.2540 | 99.9608 | 20.3588 | 277764 | 10810 | 277740 | 109 | 23 | 21.1009 | |
| egarrison-hhga | SNP | * | * | * | 99.8985 | 99.8365 | 99.9607 | 18.3304 | 3049624 | 4995 | 3049677 | 1199 | 305 | 25.4379 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.7735 | 93.7833 | 99.9606 | 29.6505 | 7558 | 501 | 7606 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.7735 | 93.7833 | 99.9606 | 29.6505 | 7558 | 501 | 7606 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9257 | 99.8911 | 99.9604 | 56.1148 | 20177 | 22 | 20177 | 8 | 7 | 87.5000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9406 | 99.9208 | 99.9604 | 49.7187 | 10094 | 8 | 10094 | 4 | 3 | 75.0000 | |
| jli-custom | SNP | ti | map_siren | homalt | 99.8561 | 99.7521 | 99.9604 | 48.6440 | 37822 | 94 | 37819 | 15 | 15 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | * | * | 99.9512 | 99.9420 | 99.9604 | 21.8980 | 969128 | 562 | 969027 | 384 | 163 | 42.4479 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9455 | 99.9307 | 99.9604 | 55.9950 | 20185 | 14 | 20185 | 8 | 8 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9108 | 99.8613 | 99.9603 | 61.0721 | 10083 | 14 | 10083 | 4 | 4 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9059 | 99.8514 | 99.9603 | 61.6429 | 10082 | 15 | 10082 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6612 | 95.4654 | 99.9603 | 33.6622 | 10000 | 475 | 10082 | 4 | 3 | 75.0000 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8514 | 99.7426 | 99.9603 | 49.3467 | 10076 | 26 | 10076 | 4 | 4 | 100.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8415 | 99.9603 | 61.7282 | 10081 | 16 | 10081 | 4 | 4 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | * | het | 99.9077 | 99.8553 | 99.9601 | 20.8554 | 590840 | 856 | 590766 | 236 | 19 | 8.0509 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5385 | 93.3434 | 99.9601 | 37.5156 | 2468 | 176 | 2504 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | * | HG002complexvar | homalt | 99.9511 | 99.9421 | 99.9601 | 19.9304 | 288407 | 167 | 288378 | 115 | 109 | 94.7826 | |
| ndellapenna-hhga | SNP | * | HG002complexvar | het | 99.7473 | 99.5353 | 99.9601 | 18.3091 | 463334 | 2163 | 463353 | 185 | 79 | 42.7027 | |
| raldana-dualsentieon | SNP | ti | segdup | homalt | 99.9134 | 99.8668 | 99.9600 | 87.2078 | 7495 | 10 | 7495 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | segdup | homalt | 99.9600 | 99.9600 | 99.9600 | 88.1690 | 7502 | 3 | 7502 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | ti | segdup | homalt | 99.9067 | 99.8534 | 99.9600 | 87.5169 | 7494 | 11 | 7494 | 3 | 3 | 100.0000 | |