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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23151-23200 / 86044 show all | |||||||||||||||
| jli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6032 | 99.8263 | 99.3810 | 56.4884 | 17820 | 31 | 17821 | 111 | 6 | 5.4054 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8440 | 99.7316 | 99.9566 | 64.4687 | 11521 | 31 | 11521 | 5 | 4 | 80.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8440 | 99.7316 | 99.9566 | 64.4687 | 11521 | 31 | 11521 | 5 | 4 | 80.0000 | |
| jli-custom | SNP | ti | map_l125_m0_e0 | homalt | 99.5980 | 99.3097 | 99.8880 | 64.8868 | 4460 | 31 | 4460 | 5 | 5 | 100.0000 | |
| jli-custom | SNP | tv | HG002compoundhet | * | 99.6414 | 99.6526 | 99.6301 | 48.9851 | 8892 | 31 | 8889 | 33 | 14 | 42.4242 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2837 | 99.7301 | 96.8787 | 61.7262 | 11453 | 31 | 11453 | 369 | 356 | 96.4770 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.2389 | 96.7975 | 95.6867 | 83.0087 | 937 | 31 | 843 | 38 | 30 | 78.9474 | |
| jmaeng-gatk | INDEL | * | map_l150_m2_e1 | * | 95.8234 | 97.8457 | 93.8830 | 93.2629 | 1408 | 31 | 1412 | 92 | 10 | 10.8696 | |
| jmaeng-gatk | INDEL | * | map_siren | hetalt | 93.3045 | 87.4494 | 100.0000 | 86.8039 | 216 | 31 | 218 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.5546 | 98.8657 | 96.2777 | 63.5724 | 2702 | 31 | 2690 | 104 | 99 | 95.1923 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4186 | 97.3773 | 99.4823 | 27.6981 | 1151 | 31 | 1153 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.9225 | 92.5121 | 97.4619 | 73.8553 | 383 | 31 | 384 | 10 | 8 | 80.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1693 | 98.8590 | 99.4815 | 88.1277 | 2686 | 31 | 2686 | 14 | 11 | 78.5714 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 86.8217 | 78.3217 | 97.3913 | 92.9405 | 112 | 31 | 112 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e0 | * | 98.2547 | 98.5883 | 97.9233 | 87.9829 | 2165 | 31 | 2169 | 46 | 7 | 15.2174 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.7687 | 94.9675 | 98.6395 | 64.7059 | 585 | 31 | 580 | 8 | 8 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.3941 | 92.5121 | 98.4615 | 73.8956 | 383 | 31 | 384 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.8396 | 93.5417 | 98.2533 | 81.8470 | 449 | 31 | 450 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5600 | 99.2006 | 99.9221 | 57.7897 | 3847 | 31 | 3847 | 3 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | HG002complexvar | * | 98.4592 | 97.6318 | 99.3007 | 66.7785 | 1278 | 31 | 1278 | 9 | 8 | 88.8889 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1027 | 94.6827 | 99.6497 | 66.9177 | 552 | 31 | 569 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.3494 | 99.4543 | 99.2447 | 49.9340 | 5650 | 31 | 5650 | 43 | 42 | 97.6744 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |
| hfeng-pmm3 | SNP | * | map_l150_m1_e0 | homalt | 99.7427 | 99.7250 | 99.7604 | 71.2100 | 11242 | 31 | 11242 | 27 | 10 | 37.0370 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e0 | homalt | 99.7521 | 99.7350 | 99.7691 | 73.4090 | 11668 | 31 | 11668 | 27 | 10 | 37.0370 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | homalt | 99.7548 | 99.7379 | 99.7716 | 73.4338 | 11796 | 31 | 11796 | 27 | 10 | 37.0370 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.5663 | 85.9729 | 97.9381 | 91.4197 | 190 | 31 | 190 | 4 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5487 | 99.1014 | 100.0000 | 35.3153 | 3419 | 31 | 3416 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8754 | 95.3172 | 96.4401 | 77.6815 | 631 | 31 | 596 | 22 | 12 | 54.5455 | |
| jlack-gatk | SNP | ti | HG002compoundhet | het | 99.4749 | 99.6739 | 99.2768 | 41.5881 | 9474 | 31 | 9472 | 69 | 16 | 23.1884 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6951 | 99.8992 | 99.4918 | 73.2959 | 30730 | 31 | 30737 | 157 | 151 | 96.1783 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1995 | 98.5500 | 99.8576 | 35.6051 | 2107 | 31 | 2104 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5421 | 99.7007 | 99.3840 | 44.2028 | 10326 | 31 | 10326 | 64 | 61 | 95.3125 | |
| hfeng-pmm3 | INDEL | * | map_l125_m1_e0 | * | 98.6235 | 98.5287 | 98.7186 | 85.1274 | 2076 | 31 | 2080 | 27 | 6 | 22.2222 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3167 | 99.5384 | 99.0960 | 53.8093 | 6685 | 31 | 6687 | 61 | 11 | 18.0328 | |
| eyeh-varpipe | INDEL | I6_15 | segdup | hetalt | 47.4576 | 31.1111 | 100.0000 | 91.1243 | 14 | 31 | 15 | 0 | 0 | ||
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.0585 | 99.7289 | 92.6487 | 50.1527 | 11402 | 31 | 10889 | 864 | 45 | 5.2083 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9380 | 99.2225 | 98.6552 | 35.2022 | 3956 | 31 | 3888 | 53 | 17 | 32.0755 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.7882 | 96.6046 | 73.9742 | 88.0348 | 882 | 31 | 631 | 222 | 19 | 8.5586 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e0 | homalt | 99.0487 | 98.2276 | 99.8837 | 88.8268 | 1718 | 31 | 1718 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | homalt | 99.2297 | 98.6042 | 99.8632 | 74.1727 | 2190 | 31 | 2190 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | * | map_l150_m0_e0 | * | 85.7904 | 93.9689 | 78.9216 | 93.5231 | 483 | 31 | 483 | 129 | 24 | 18.6047 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 37.1546 | 81.6568 | 24.0484 | 55.6068 | 138 | 31 | 139 | 439 | 435 | 99.0888 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 31 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.2204 | 87.9845 | 99.1189 | 50.4367 | 227 | 31 | 225 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m1_e0 | homalt | 97.1395 | 94.7635 | 99.6377 | 74.6207 | 561 | 31 | 550 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e0 | homalt | 97.2307 | 94.9264 | 99.6497 | 75.8051 | 580 | 31 | 569 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | segdup | homalt | 95.4876 | 91.3649 | 100.0000 | 92.3834 | 328 | 31 | 325 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | map_siren | homalt | 86.4629 | 76.1538 | 100.0000 | 75.5102 | 99 | 31 | 96 | 0 | 0 | ||