PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63751-63800 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 90.5470 | 96.0437 | 85.6454 | 67.9552 | 704 | 29 | 710 | 119 | 13 | 10.9244 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m1_e0 | het | 97.8601 | 97.5207 | 98.2019 | 84.3405 | 708 | 18 | 710 | 13 | 2 | 15.3846 | |
| gduggal-bwafb | INDEL | D1_5 | map_l125_m1_e0 | het | 97.3253 | 97.6584 | 96.9945 | 85.1972 | 709 | 17 | 710 | 22 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.6799 | 98.8842 | 98.4765 | 86.4946 | 709 | 8 | 711 | 11 | 3 | 27.2727 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8186 | 99.1632 | 98.4765 | 57.3034 | 711 | 6 | 711 | 11 | 10 | 90.9091 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.8046 | 83.5488 | 99.4406 | 88.0415 | 711 | 140 | 711 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3017 | 99.1632 | 99.4406 | 55.8914 | 711 | 6 | 711 | 4 | 3 | 75.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7500 | 99.1632 | 98.3402 | 56.4720 | 711 | 6 | 711 | 12 | 11 | 91.6667 | |
| ciseli-custom | SNP | * | HG002compoundhet | hetalt | 90.1141 | 82.4826 | 99.3017 | 17.9840 | 711 | 151 | 711 | 5 | 2 | 40.0000 | |
| ciseli-custom | SNP | tv | HG002compoundhet | hetalt | 90.1141 | 82.4826 | 99.3017 | 17.9840 | 711 | 151 | 711 | 5 | 2 | 40.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m1_e0 | het | 95.2376 | 97.3829 | 93.1848 | 85.5574 | 707 | 19 | 711 | 52 | 4 | 7.6923 | |
| cchapple-custom | INDEL | * | map_l125_m1_e0 | homalt | 98.2049 | 97.1311 | 99.3026 | 83.9597 | 711 | 21 | 712 | 5 | 4 | 80.0000 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e0 | homalt | 96.0216 | 93.3159 | 98.8889 | 83.3218 | 712 | 51 | 712 | 8 | 5 | 62.5000 | |
| gduggal-bwaplat | SNP | * | map_l250_m1_e0 | homalt | 44.8992 | 28.9484 | 100.0000 | 95.4511 | 713 | 1750 | 712 | 0 | 0 | ||
| ckim-isaac | SNP | ti | map_l250_m0_e0 | * | 68.2974 | 51.9708 | 99.5804 | 93.7826 | 712 | 658 | 712 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m1_e0 | * | 98.2056 | 99.0237 | 97.4008 | 89.1607 | 710 | 7 | 712 | 19 | 4 | 21.0526 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.9354 | 99.0237 | 96.8707 | 88.7477 | 710 | 7 | 712 | 23 | 3 | 13.0435 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3719 | 99.3026 | 99.4413 | 55.9656 | 712 | 5 | 712 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | homalt | 95.6347 | 93.3159 | 98.0716 | 83.8343 | 712 | 51 | 712 | 14 | 5 | 35.7143 | |
| qzeng-custom | INDEL | * | map_l125_m1_e0 | homalt | 83.3361 | 73.4973 | 96.2162 | 85.8482 | 538 | 194 | 712 | 28 | 10 | 35.7143 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 86.5177 | 76.8147 | 99.0264 | 30.1942 | 709 | 214 | 712 | 7 | 7 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.0098 | 95.0798 | 80.2025 | 58.7471 | 715 | 37 | 713 | 176 | 170 | 96.5909 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.8610 | 91.4980 | 98.4807 | 64.9564 | 226 | 21 | 713 | 11 | 8 | 72.7273 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.8095 | 30.0844 | 80.5650 | 56.8082 | 713 | 1657 | 713 | 172 | 158 | 91.8605 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.2389 | 79.1284 | 99.7203 | 27.1152 | 690 | 182 | 713 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m1_e0 | het | 98.0069 | 98.2094 | 97.8052 | 85.5214 | 713 | 13 | 713 | 16 | 3 | 18.7500 | |
| gduggal-snapfb | INDEL | D1_5 | segdup | het | 97.2186 | 97.8324 | 96.6125 | 94.2604 | 677 | 15 | 713 | 25 | 3 | 12.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.8280 | 83.7838 | 99.1655 | 88.4275 | 713 | 138 | 713 | 6 | 3 | 50.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4127 | 97.2715 | 99.5810 | 71.6772 | 713 | 20 | 713 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m1_e0 | het | 98.0040 | 97.9339 | 98.0743 | 85.2983 | 711 | 15 | 713 | 14 | 3 | 21.4286 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.6171 | 94.9468 | 98.3471 | 64.1481 | 714 | 38 | 714 | 12 | 9 | 75.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m2_e0 | * | 94.0092 | 93.5780 | 94.4444 | 89.3939 | 714 | 49 | 714 | 42 | 21 | 50.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8235 | 99.1667 | 98.4828 | 87.3627 | 714 | 6 | 714 | 11 | 4 | 36.3636 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3046 | 99.1667 | 99.4429 | 87.9933 | 714 | 6 | 714 | 4 | 3 | 75.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.3714 | 93.4840 | 99.4429 | 53.4069 | 703 | 49 | 714 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l250_m2_e1 | het | 35.5489 | 21.6429 | 99.4429 | 98.4616 | 714 | 2585 | 714 | 4 | 1 | 25.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0769 | 99.5816 | 96.6171 | 61.4099 | 714 | 3 | 714 | 25 | 24 | 96.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l125_m2_e1 | het | 85.2642 | 82.4675 | 88.2571 | 93.6289 | 635 | 135 | 714 | 95 | 20 | 21.0526 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.8171 | 30.1266 | 80.3150 | 57.0116 | 714 | 1656 | 714 | 175 | 158 | 90.2857 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e0 | homalt | 96.9842 | 97.0894 | 96.8792 | 89.5683 | 467 | 14 | 714 | 23 | 23 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.3471 | 99.5816 | 97.1429 | 61.6188 | 714 | 3 | 714 | 21 | 20 | 95.2381 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 92.9688 | 92.3674 | 93.5780 | 71.2618 | 714 | 59 | 714 | 49 | 29 | 59.1837 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.4848 | 99.7211 | 97.2789 | 61.7387 | 715 | 2 | 715 | 20 | 19 | 95.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 57.5970 | 40.5152 | 99.5822 | 36.4039 | 692 | 1016 | 715 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6207 | 99.7211 | 97.5443 | 61.5021 | 715 | 2 | 715 | 18 | 17 | 94.4444 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 70.9325 | 55.3834 | 98.6207 | 47.8042 | 715 | 576 | 715 | 10 | 9 | 90.0000 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e0 | homalt | 96.4345 | 93.9712 | 99.0305 | 81.0846 | 717 | 46 | 715 | 7 | 4 | 57.1429 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.1682 | 99.4444 | 98.8935 | 86.9353 | 716 | 4 | 715 | 8 | 7 | 87.5000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8252 | 99.7211 | 97.9452 | 60.2829 | 715 | 2 | 715 | 15 | 14 | 93.3333 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.4848 | 99.7211 | 97.2789 | 61.7387 | 715 | 2 | 715 | 20 | 19 | 95.0000 | |