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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14951-15000 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e1 | * | 99.1256 | 98.4625 | 99.7978 | 64.9540 | 30099 | 470 | 30102 | 61 | 19 | 31.1475 | |
| ltrigg-rtg1 | SNP | tv | HG002complexvar | homalt | 99.9101 | 99.8465 | 99.9737 | 22.5425 | 94965 | 146 | 95003 | 25 | 19 | 76.0000 | |
| ltrigg-rtg1 | SNP | tv | segdup | homalt | 99.6765 | 99.9382 | 99.4161 | 89.9204 | 3236 | 2 | 3235 | 19 | 19 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.3820 | 92.0779 | 98.9320 | 57.7089 | 2034 | 175 | 2038 | 22 | 19 | 86.3636 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4393 | 99.6564 | 99.2231 | 66.7595 | 31036 | 107 | 31036 | 243 | 19 | 7.8189 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4393 | 99.6564 | 99.2231 | 66.7595 | 31036 | 107 | 31036 | 243 | 19 | 7.8189 | |
| jli-custom | SNP | ti | map_l150_m0_e0 | * | 98.8029 | 98.1682 | 99.4459 | 75.0426 | 7717 | 144 | 7717 | 43 | 19 | 44.1860 | |
| jli-custom | SNP | tv | map_l150_m1_e0 | het | 98.7145 | 98.4020 | 99.0291 | 72.7212 | 6835 | 111 | 6834 | 67 | 19 | 28.3582 | |
| jli-custom | SNP | tv | map_l150_m2_e0 | het | 98.7416 | 98.4694 | 99.0154 | 74.3882 | 7141 | 111 | 7140 | 71 | 19 | 26.7606 | |
| jli-custom | SNP | tv | map_l150_m2_e1 | het | 98.7581 | 98.4894 | 99.0283 | 74.4439 | 7237 | 111 | 7236 | 71 | 19 | 26.7606 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.4267 | 96.6141 | 98.2531 | 76.5682 | 2083 | 73 | 2081 | 37 | 19 | 51.3514 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7095 | 99.5789 | 99.8404 | 58.9584 | 28141 | 119 | 28144 | 45 | 19 | 42.2222 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.1888 | 99.1803 | 95.2756 | 71.1364 | 484 | 4 | 484 | 24 | 19 | 79.1667 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6339 | 99.5404 | 97.7437 | 66.8858 | 1083 | 5 | 1083 | 25 | 19 | 76.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1797 | 95.6882 | 98.7185 | 59.2515 | 2308 | 104 | 2311 | 30 | 19 | 63.3333 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8431 | 99.0551 | 98.6319 | 76.1009 | 19394 | 185 | 19394 | 269 | 19 | 7.0632 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8431 | 99.0551 | 98.6319 | 76.1009 | 19394 | 185 | 19394 | 269 | 19 | 7.0632 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | * | 95.0986 | 92.0876 | 98.3131 | 57.3034 | 1513 | 130 | 1457 | 25 | 19 | 76.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.0639 | 76.7320 | 97.9798 | 69.7941 | 1174 | 356 | 1164 | 24 | 19 | 79.1667 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.0639 | 76.7320 | 97.9798 | 69.7941 | 1174 | 356 | 1164 | 24 | 19 | 79.1667 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4365 | 96.8847 | 97.9946 | 71.7201 | 6220 | 200 | 6206 | 127 | 19 | 14.9606 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4365 | 96.8847 | 97.9946 | 71.7201 | 6220 | 200 | 6206 | 127 | 19 | 14.9606 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m1_e0 | * | 77.6786 | 74.3590 | 81.3084 | 89.7706 | 87 | 30 | 87 | 20 | 19 | 95.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m1_e0 | het | 83.3333 | 93.7500 | 75.0000 | 90.8780 | 60 | 4 | 60 | 20 | 19 | 95.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m2_e0 | * | 78.3333 | 74.6032 | 82.4561 | 90.1299 | 94 | 32 | 94 | 20 | 19 | 95.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m2_e0 | het | 83.3333 | 91.5493 | 76.4706 | 91.2099 | 65 | 6 | 65 | 20 | 19 | 95.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 56.4706 | 58.5366 | 54.5455 | 79.5349 | 24 | 17 | 24 | 20 | 19 | 95.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.3862 | 92.1687 | 96.7130 | 85.8775 | 765 | 65 | 765 | 26 | 19 | 73.0769 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.5168 | 99.1748 | 97.8675 | 68.3868 | 3846 | 32 | 3855 | 84 | 19 | 22.6190 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6119 | 99.1025 | 98.1262 | 58.8223 | 3975 | 36 | 3980 | 76 | 19 | 25.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.7538 | 99.9318 | 97.6032 | 55.4303 | 1465 | 1 | 1466 | 36 | 19 | 52.7778 | |
| jpowers-varprowl | SNP | ti | map_l250_m0_e0 | * | 93.0946 | 92.9927 | 93.1968 | 94.8911 | 1274 | 96 | 1274 | 93 | 19 | 20.4301 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | homalt | 99.4476 | 99.2253 | 99.6709 | 64.2590 | 6660 | 52 | 6663 | 22 | 19 | 86.3636 | |
| ckim-dragen | SNP | ti | map_l100_m1_e0 | homalt | 99.6288 | 99.3708 | 99.8881 | 54.6776 | 17847 | 113 | 17852 | 20 | 19 | 95.0000 | |
| ckim-dragen | SNP | ti | map_l250_m2_e0 | * | 97.3484 | 97.8435 | 96.8583 | 89.6841 | 4900 | 108 | 4902 | 159 | 19 | 11.9497 | |
| ciseli-custom | SNP | * | * | hetalt | 87.9067 | 82.2044 | 94.4591 | 39.6977 | 716 | 155 | 716 | 42 | 19 | 45.2381 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.4900 | 97.9500 | 77.4308 | 59.1746 | 2389 | 50 | 2405 | 701 | 19 | 2.7104 | |
| ciseli-custom | SNP | ti | segdup | het | 96.4948 | 98.3957 | 94.6659 | 91.6122 | 11837 | 193 | 11802 | 665 | 19 | 2.8571 | |
| ciseli-custom | SNP | tv | * | hetalt | 87.9067 | 82.2044 | 94.4591 | 39.6977 | 716 | 155 | 716 | 42 | 19 | 45.2381 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.4490 | 98.2824 | 80.4044 | 77.2309 | 515 | 9 | 517 | 126 | 19 | 15.0794 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.5701 | 97.8381 | 69.9407 | 68.1937 | 2127 | 47 | 2122 | 912 | 19 | 2.0833 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8088 | 99.7806 | 99.8371 | 58.7309 | 28198 | 62 | 28192 | 46 | 19 | 41.3043 | |
| ckim-dragen | INDEL | * | map_l100_m1_e0 | * | 96.9560 | 97.3229 | 96.5919 | 86.1888 | 3490 | 96 | 3486 | 123 | 19 | 15.4472 | |
| ckim-dragen | INDEL | * | map_l100_m2_e0 | * | 96.9907 | 97.3734 | 96.6111 | 87.1158 | 3596 | 97 | 3592 | 126 | 19 | 15.0794 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0612 | 88.8224 | 97.7248 | 55.9006 | 890 | 112 | 902 | 21 | 19 | 90.4762 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4844 | 97.4321 | 99.5596 | 48.5952 | 1328 | 35 | 4973 | 22 | 19 | 86.3636 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.1207 | 98.7596 | 99.4845 | 63.9164 | 4777 | 60 | 4825 | 25 | 19 | 76.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.3555 | 99.2863 | 97.4421 | 79.1072 | 14467 | 104 | 14476 | 380 | 19 | 5.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.3555 | 99.2863 | 97.4421 | 79.1072 | 14467 | 104 | 14476 | 380 | 19 | 5.0000 | |
| cchapple-custom | INDEL | * | map_l125_m1_e0 | het | 94.5817 | 96.3296 | 92.8962 | 87.3662 | 1286 | 49 | 1360 | 104 | 19 | 18.2692 | |