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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29551-29600 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.9627 | 94.4899 | 99.5685 | 38.0503 | 3464 | 202 | 3461 | 15 | 9 | 60.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002complexvar | het | 96.2431 | 94.4896 | 98.0630 | 66.6532 | 1046 | 61 | 810 | 16 | 6 | 37.5000 | |
| asubramanian-gatk | SNP | * | * | hetalt | 94.8157 | 94.4891 | 95.1445 | 47.6709 | 823 | 48 | 823 | 42 | 2 | 4.7619 | |
| asubramanian-gatk | SNP | tv | * | hetalt | 95.7533 | 94.4891 | 97.0519 | 45.7454 | 823 | 48 | 823 | 25 | 2 | 8.0000 | |
| mlin-fermikit | SNP | * | * | hetalt | 97.1091 | 94.4891 | 99.8786 | 32.2368 | 823 | 48 | 823 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | tv | * | hetalt | 97.1091 | 94.4891 | 99.8786 | 32.2368 | 823 | 48 | 823 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.9898 | 94.4882 | 95.4967 | 65.8834 | 720 | 42 | 721 | 34 | 23 | 67.6471 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m2_e1 | het | 96.4880 | 94.4882 | 98.5743 | 86.6285 | 480 | 28 | 484 | 7 | 1 | 14.2857 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 84.8057 | 94.4882 | 76.9231 | 49.6774 | 120 | 7 | 120 | 36 | 30 | 83.3333 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.8617 | 94.4882 | 95.2381 | 52.2727 | 120 | 7 | 120 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9159 | 94.4855 | 99.4747 | 56.3830 | 7933 | 463 | 7953 | 42 | 13 | 30.9524 | |
| ghariani-varprowl | INDEL | D1_5 | map_l100_m2_e1 | * | 91.5085 | 94.4817 | 88.7167 | 87.2602 | 1832 | 107 | 1832 | 233 | 66 | 28.3262 | |
| gduggal-bwafb | INDEL | * | HG002complexvar | * | 96.4189 | 94.4813 | 98.4377 | 54.9407 | 72692 | 4246 | 74289 | 1179 | 1015 | 86.0899 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.2407 | 94.4809 | 96.0129 | 51.7704 | 13969 | 816 | 13967 | 580 | 530 | 91.3793 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.1158 | 94.4808 | 84.3273 | 67.4932 | 2020 | 118 | 2432 | 452 | 436 | 96.4602 | |
| ckim-vqsr | INDEL | * | map_l150_m2_e1 | het | 94.7936 | 94.4805 | 95.1087 | 94.5035 | 873 | 51 | 875 | 45 | 4 | 8.8889 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2459 | 94.4805 | 98.0785 | 59.8187 | 1164 | 68 | 1174 | 23 | 10 | 43.4783 | |
| gduggal-bwafb | INDEL | * | map_l150_m2_e1 | het | 95.7962 | 94.4805 | 97.1491 | 88.8645 | 873 | 51 | 886 | 26 | 2 | 7.6923 | |
| ghariani-varprowl | INDEL | D1_5 | map_l100_m1_e0 | * | 91.4375 | 94.4805 | 88.5845 | 86.5571 | 1746 | 102 | 1746 | 225 | 65 | 28.8889 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7448 | 94.4798 | 99.1212 | 50.4094 | 3714 | 217 | 3722 | 33 | 3 | 9.0909 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9242 | 94.4785 | 91.4201 | 83.9430 | 308 | 18 | 309 | 29 | 4 | 13.7931 | |
| gduggal-snapvard | SNP | ti | map_l125_m0_e0 | homalt | 96.9471 | 94.4778 | 99.5488 | 70.5648 | 4243 | 248 | 4192 | 19 | 15 | 78.9474 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 84.1988 | 94.4771 | 75.9374 | 66.3688 | 2087 | 122 | 2086 | 661 | 626 | 94.7050 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.5066 | 94.4770 | 98.6254 | 46.6789 | 1129 | 66 | 1148 | 16 | 15 | 93.7500 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6527 | 94.4759 | 98.9323 | 48.2177 | 6345 | 371 | 7042 | 76 | 21 | 27.6316 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m0_e0 | * | 93.4216 | 94.4751 | 92.3913 | 87.7849 | 513 | 30 | 510 | 42 | 14 | 33.3333 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0913 | 94.4749 | 99.8568 | 32.8741 | 2069 | 121 | 2092 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 95.1872 | 94.4745 | 95.9108 | 49.8134 | 872 | 51 | 258 | 11 | 11 | 100.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | hetalt | 95.8808 | 94.4732 | 97.3310 | 25.3652 | 547 | 32 | 547 | 15 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | * | map_l150_m0_e0 | * | 94.8356 | 94.4731 | 95.2010 | 82.0124 | 11367 | 665 | 11367 | 573 | 270 | 47.1204 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5751 | 94.4731 | 98.7728 | 51.8310 | 3299 | 193 | 3300 | 41 | 34 | 82.9268 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9831 | 94.4710 | 99.6324 | 29.8141 | 10491 | 614 | 10571 | 39 | 39 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.1401 | 94.4708 | 99.9645 | 35.6743 | 5570 | 326 | 5631 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.1401 | 94.4708 | 99.9645 | 35.6743 | 5570 | 326 | 5631 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1564 | 94.4700 | 100.0000 | 39.0547 | 205 | 12 | 245 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.8949 | 94.4670 | 99.4508 | 25.3587 | 6505 | 381 | 6519 | 36 | 36 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0710 | 94.4664 | 99.8233 | 40.6709 | 1673 | 98 | 1695 | 3 | 3 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.7084 | 94.4652 | 99.0608 | 42.7483 | 3789 | 222 | 3797 | 36 | 12 | 33.3333 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | HG002complexvar | homalt | 96.9739 | 94.4637 | 99.6212 | 60.8309 | 273 | 16 | 263 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | homalt | 84.2050 | 94.4637 | 75.9563 | 78.1493 | 273 | 16 | 278 | 88 | 85 | 96.5909 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.6211 | 94.4615 | 98.8818 | 35.5967 | 614 | 36 | 619 | 7 | 6 | 85.7143 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.7606 | 94.4613 | 95.0617 | 64.4054 | 1245 | 73 | 1232 | 64 | 61 | 95.3125 | |
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 97.1514 | 94.4606 | 100.0000 | 85.5551 | 324 | 19 | 324 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9925 | 94.4604 | 95.5306 | 69.2327 | 9515 | 558 | 9362 | 438 | 390 | 89.0411 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | hetalt | 96.9361 | 94.4597 | 99.5459 | 61.8378 | 9650 | 566 | 9645 | 44 | 44 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 90.7748 | 94.4594 | 87.3670 | 66.7807 | 4569 | 268 | 5007 | 724 | 345 | 47.6519 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8289 | 94.4588 | 99.3210 | 38.8312 | 1824 | 107 | 2048 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8289 | 94.4588 | 99.3210 | 38.8312 | 1824 | 107 | 2048 | 14 | 14 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.9477 | 94.4556 | 99.5749 | 66.5601 | 937 | 55 | 937 | 4 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.8607 | 94.4535 | 99.3939 | 46.6406 | 9894 | 581 | 10167 | 62 | 61 | 98.3871 | |