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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59001-59050 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4598 | 98.9813 | 99.9429 | 61.0494 | 1749 | 18 | 1751 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0116 | 96.6355 | 99.4275 | 73.3333 | 517 | 18 | 521 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_siren | * | 99.2660 | 99.4899 | 99.0431 | 81.6382 | 3511 | 18 | 3519 | 34 | 6 | 17.6471 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 67.8590 | 93.2584 | 53.3333 | 46.3895 | 249 | 18 | 392 | 343 | 331 | 96.5015 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 26.2295 | 25.0000 | 27.5862 | 55.3846 | 6 | 18 | 8 | 21 | 14 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l150_m0_e0 | * | 96.2251 | 96.4981 | 95.9538 | 92.9541 | 496 | 18 | 498 | 21 | 4 | 19.0476 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 88.8889 | 91.0891 | 86.7925 | 93.8746 | 184 | 18 | 184 | 28 | 1 | 3.5714 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.1530 | 98.6794 | 99.6313 | 77.5757 | 1345 | 18 | 1351 | 5 | 3 | 60.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2824 | 98.8813 | 99.6867 | 44.4483 | 1591 | 18 | 1591 | 5 | 1 | 20.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.1387 | 99.5421 | 98.7386 | 58.2561 | 3913 | 18 | 3914 | 50 | 1 | 2.0000 | |
| 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 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4640 | 98.9336 | 100.0000 | 64.4882 | 1670 | 18 | 1679 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l125_m1_e0 | hetalt | 40.0000 | 25.0000 | 100.0000 | 90.3226 | 6 | 18 | 6 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l125_m2_e0 | hetalt | 40.0000 | 25.0000 | 100.0000 | 92.5926 | 6 | 18 | 6 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l125_m2_e1 | hetalt | 40.0000 | 25.0000 | 100.0000 | 92.5926 | 6 | 18 | 6 | 0 | 0 | ||
| anovak-vg | INDEL | D16_PLUS | segdup | * | 76.0605 | 68.9655 | 84.7826 | 91.5129 | 40 | 18 | 39 | 7 | 4 | 57.1429 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 93.7340 | 94.7522 | 92.7374 | 52.4568 | 325 | 18 | 332 | 26 | 15 | 57.6923 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e0 | * | 79.8890 | 78.0488 | 81.8182 | 91.2201 | 64 | 18 | 63 | 14 | 9 | 64.2857 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 10.0000 | 0.0000 | 0.0000 | 2 | 18 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 21.3904 | 21.7391 | 21.0526 | 62.0000 | 5 | 18 | 8 | 30 | 16 | 53.3333 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.0189 | 97.0540 | 87.4804 | 71.5621 | 593 | 18 | 559 | 80 | 76 | 95.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_siren | het | 99.0779 | 98.9292 | 99.2271 | 81.4696 | 1663 | 18 | 1669 | 13 | 1 | 7.6923 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9298 | 97.5741 | 98.2882 | 73.1623 | 724 | 18 | 689 | 12 | 6 | 50.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.4931 | 99.5753 | 99.4111 | 78.7569 | 4220 | 18 | 4220 | 25 | 5 | 20.0000 | |
| bgallagher-sentieon | SNP | ti | map_l250_m0_e0 | * | 98.1132 | 98.6861 | 97.5469 | 93.1376 | 1352 | 18 | 1352 | 34 | 7 | 20.5882 | |
| bgallagher-sentieon | SNP | ti | map_l250_m1_e0 | homalt | 99.3125 | 98.8799 | 99.7489 | 85.0633 | 1589 | 18 | 1589 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | SNP | ti | map_l250_m2_e0 | homalt | 99.3685 | 98.9708 | 99.7695 | 86.1400 | 1731 | 18 | 1731 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | SNP | ti | map_l250_m2_e1 | homalt | 99.3768 | 98.9842 | 99.7725 | 86.1825 | 1754 | 18 | 1754 | 4 | 3 | 75.0000 | |
| astatham-gatk | SNP | * | segdup | homalt | 99.8696 | 99.8324 | 99.9068 | 88.1147 | 10725 | 18 | 10725 | 10 | 10 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6057 | 99.2925 | 99.9209 | 50.5187 | 2526 | 18 | 2526 | 2 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.2844 | 98.6527 | 99.9242 | 48.8561 | 1318 | 18 | 1318 | 1 | 0 | 0.0000 | |
| 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 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 28.6738 | 21.7391 | 42.1053 | 61.2245 | 5 | 18 | 8 | 11 | 10 | 90.9091 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m1_e0 | * | 86.6250 | 84.6154 | 88.7324 | 87.5548 | 99 | 18 | 126 | 16 | 16 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 80.3116 | 70.0000 | 94.1860 | 83.6812 | 42 | 18 | 81 | 5 | 4 | 80.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 43.1125 | 69.4915 | 31.2500 | 41.9501 | 41 | 18 | 80 | 176 | 164 | 93.1818 | |
| gduggal-bwavard | INDEL | * | tech_badpromoters | * | 77.1889 | 76.3158 | 78.0822 | 58.7571 | 58 | 18 | 57 | 16 | 15 | 93.7500 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 69.6011 | 56.0976 | 91.6667 | 72.4138 | 23 | 18 | 22 | 2 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.8074 | 99.7089 | 94.0700 | 62.9542 | 6166 | 18 | 5917 | 373 | 14 | 3.7534 | |
| eyeh-varpipe | SNP | * | map_l125_m0_e0 | homalt | 99.7810 | 99.7318 | 99.8302 | 73.0404 | 6694 | 18 | 6469 | 11 | 5 | 45.4545 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | homalt | 96.9051 | 99.4687 | 94.4704 | 53.4614 | 3370 | 18 | 1213 | 71 | 32 | 45.0704 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7641 | 99.8350 | 99.6932 | 57.1024 | 10893 | 18 | 10724 | 33 | 14 | 42.4242 | |
| gduggal-bwafb | INDEL | * | map_l250_m1_e0 | * | 95.5075 | 94.0984 | 96.9595 | 95.4215 | 287 | 18 | 287 | 9 | 3 | 33.3333 | |
| gduggal-bwafb | INDEL | * | map_l250_m2_e0 | * | 95.8652 | 94.5619 | 97.2050 | 95.6651 | 313 | 18 | 313 | 9 | 3 | 33.3333 | |
| gduggal-bwafb | INDEL | * | map_l250_m2_e1 | * | 95.8904 | 94.5946 | 97.2222 | 95.7558 | 315 | 18 | 315 | 9 | 3 | 33.3333 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 68.8525 | 53.8462 | 95.4545 | 75.5556 | 21 | 18 | 21 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 36.3636 | 25.0000 | 66.6667 | 85.2459 | 6 | 18 | 6 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l250_m0_e0 | * | 40.0000 | 25.0000 | 100.0000 | 99.6783 | 6 | 18 | 6 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l100_m1_e0 | hetalt | 71.8750 | 56.0976 | 100.0000 | 90.3361 | 23 | 18 | 23 | 0 | 0 | ||