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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20951-21000 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D6_15 | * | * | 98.6807 | 97.9036 | 99.4704 | 46.9068 | 25545 | 547 | 25354 | 135 | 83 | 61.4815 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e1 | homalt | 98.8603 | 97.9032 | 99.8363 | 77.0646 | 607 | 13 | 610 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_siren | * | 98.3083 | 97.9031 | 98.7169 | 84.9543 | 3455 | 74 | 3462 | 45 | 6 | 13.3333 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e1 | homalt | 98.7018 | 97.9029 | 99.5138 | 87.8305 | 2661 | 57 | 2661 | 13 | 13 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | het | 98.4237 | 97.9029 | 98.9501 | 74.4344 | 2661 | 57 | 2639 | 28 | 4 | 14.2857 | |
| cchapple-custom | SNP | tv | map_l100_m2_e0 | * | 97.1975 | 97.9028 | 96.5023 | 71.7198 | 24508 | 525 | 24500 | 888 | 133 | 14.9775 | |
| ghariani-varprowl | INDEL | * | map_l125_m1_e0 | het | 91.1754 | 97.9026 | 85.3133 | 91.4837 | 1307 | 28 | 1307 | 225 | 73 | 32.4444 | |
| ckim-dragen | INDEL | I6_15 | map_siren | het | 97.9021 | 97.9021 | 97.9021 | 87.2093 | 140 | 3 | 140 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | SNP | tv | map_l250_m0_e0 | het | 96.6350 | 97.9021 | 95.4003 | 93.3341 | 560 | 12 | 560 | 27 | 2 | 7.4074 | |
| cchapple-custom | SNP | * | map_l100_m2_e1 | het | 96.8714 | 97.9018 | 95.8624 | 74.0033 | 45914 | 984 | 45967 | 1984 | 408 | 20.5645 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e1 | het | 94.4634 | 97.9012 | 91.2587 | 89.7122 | 793 | 17 | 783 | 75 | 36 | 48.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8143 | 97.9008 | 99.7450 | 65.3085 | 19168 | 411 | 19168 | 49 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8143 | 97.9008 | 99.7450 | 65.3085 | 19168 | 411 | 19168 | 49 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | ti | map_l150_m0_e0 | het | 98.0450 | 97.9007 | 98.1897 | 82.8404 | 4990 | 107 | 4990 | 92 | 34 | 36.9565 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e0 | * | 97.8366 | 97.9003 | 97.7730 | 86.6718 | 1119 | 24 | 1361 | 31 | 16 | 51.6129 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.9135 | 97.8996 | 97.9275 | 49.2246 | 3589 | 77 | 3591 | 76 | 67 | 88.1579 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m2_e0 | * | 98.4753 | 97.8996 | 99.0577 | 86.5940 | 839 | 18 | 841 | 8 | 3 | 37.5000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.5560 | 97.8984 | 93.3230 | 31.2914 | 559 | 12 | 2418 | 173 | 165 | 95.3757 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7467 | 97.8979 | 99.6103 | 71.3232 | 1304 | 28 | 1278 | 5 | 4 | 80.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1499 | 97.8975 | 98.4036 | 52.7453 | 10849 | 233 | 10849 | 176 | 172 | 97.7273 | |
| jlack-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5303 | 97.8972 | 99.1716 | 86.3357 | 838 | 18 | 838 | 7 | 5 | 71.4286 | |
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | het | 95.5765 | 97.8972 | 93.3633 | 64.0953 | 838 | 18 | 830 | 59 | 57 | 96.6102 | |
| rpoplin-dv42 | SNP | * | map_l250_m1_e0 | het | 98.0000 | 97.8970 | 98.1033 | 87.6817 | 4655 | 100 | 4655 | 90 | 55 | 61.1111 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.9624 | 97.8970 | 88.5014 | 84.9075 | 931 | 20 | 939 | 122 | 1 | 0.8197 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.3478 | 97.8970 | 92.9280 | 84.6485 | 6517 | 140 | 6557 | 499 | 142 | 28.4569 | |
| jlack-gatk | SNP | * | map_l250_m2_e1 | * | 93.5343 | 97.8966 | 89.5442 | 92.9358 | 7819 | 168 | 7819 | 913 | 69 | 7.5575 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8194 | 97.8947 | 99.7616 | 48.6536 | 837 | 18 | 837 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.5214 | 97.8947 | 89.5221 | 87.3282 | 651 | 14 | 487 | 57 | 50 | 87.7193 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.2637 | 97.8947 | 89.0511 | 87.2350 | 651 | 14 | 488 | 60 | 49 | 81.6667 | |
| dgrover-gatk | INDEL | * | map_l150_m1_e0 | het | 97.6722 | 97.8947 | 97.4508 | 91.3510 | 837 | 18 | 841 | 22 | 3 | 13.6364 | |
| hfeng-pmm1 | INDEL | I16_PLUS | HG002complexvar | het | 98.9362 | 97.8947 | 100.0000 | 62.7370 | 651 | 14 | 629 | 0 | 0 | ||
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8777 | 97.8947 | 99.8807 | 50.7349 | 837 | 18 | 837 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8777 | 97.8947 | 99.8807 | 46.8948 | 837 | 18 | 837 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0710 | 97.8937 | 98.2489 | 60.0570 | 15709 | 338 | 15710 | 280 | 267 | 95.3571 | |
| ckim-vqsr | SNP | tv | HG002compoundhet | * | 98.8066 | 97.8931 | 99.7373 | 49.7301 | 8735 | 188 | 8732 | 23 | 15 | 65.2174 | |
| gduggal-snapfb | SNP | tv | HG002compoundhet | * | 79.6649 | 97.8931 | 67.1595 | 54.5136 | 8735 | 188 | 8812 | 4309 | 247 | 5.7322 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.4573 | 97.8921 | 99.0291 | 73.9064 | 1579 | 34 | 1530 | 15 | 10 | 66.6667 | |
| gduggal-bwavard | SNP | * | map_l125_m2_e0 | het | 94.1644 | 97.8921 | 90.7102 | 83.1354 | 28700 | 618 | 28366 | 2905 | 164 | 5.6454 | |
| gduggal-bwafb | SNP | tv | map_l150_m0_e0 | * | 97.8800 | 97.8917 | 97.8683 | 82.0892 | 4086 | 88 | 4086 | 89 | 22 | 24.7191 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | * | 98.0795 | 97.8917 | 98.2680 | 78.2094 | 4086 | 88 | 4085 | 72 | 45 | 62.5000 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.2249 | 97.8914 | 96.5673 | 61.2235 | 6871 | 148 | 7033 | 250 | 97 | 38.8000 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1160 | 97.8900 | 98.3429 | 64.4756 | 27094 | 584 | 27122 | 457 | 344 | 75.2735 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.1282 | 97.8892 | 92.5187 | 45.3678 | 371 | 8 | 371 | 30 | 24 | 80.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.2141 | 97.8892 | 98.5411 | 67.8190 | 1484 | 32 | 1486 | 22 | 10 | 45.4545 | |
| jli-custom | INDEL | * | map_l100_m0_e0 | * | 97.9520 | 97.8887 | 98.0154 | 84.8379 | 1530 | 33 | 1531 | 31 | 10 | 32.2581 | |
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | homalt | 97.8873 | 97.8873 | 97.8873 | 88.7703 | 278 | 6 | 278 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.5466 | 97.8873 | 89.5745 | 84.0136 | 834 | 18 | 842 | 98 | 1 | 1.0204 | |
| raldana-dualsentieon | INDEL | * | map_l125_m0_e0 | homalt | 98.0600 | 97.8873 | 98.2332 | 86.1002 | 278 | 6 | 278 | 5 | 3 | 60.0000 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8722 | 97.8873 | 99.8771 | 70.5393 | 834 | 18 | 813 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9324 | 97.8873 | 100.0000 | 78.7726 | 834 | 18 | 799 | 0 | 0 | ||