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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77651-77700 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | ti | map_l125_m2_e0 | het | 77.8322 | 72.4359 | 84.0972 | 81.0572 | 13673 | 5203 | 13670 | 2585 | 72 | 2.7853 | |
| ciseli-custom | SNP | ti | map_l125_m2_e1 | het | 77.9434 | 72.5730 | 84.1721 | 81.0539 | 13852 | 5235 | 13848 | 2604 | 72 | 2.7650 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 73.3002 | 96.8017 | 58.9809 | 87.2316 | 454 | 15 | 463 | 322 | 72 | 22.3602 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.2844 | 97.5309 | 78.9862 | 44.6999 | 7268 | 184 | 7277 | 1936 | 72 | 3.7190 | |
| ciseli-custom | SNP | tv | segdup | homalt | 97.7133 | 99.2897 | 96.1862 | 90.1152 | 3215 | 23 | 3203 | 127 | 72 | 56.6929 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2722 | 96.5106 | 96.0350 | 77.8916 | 2102 | 76 | 1865 | 77 | 72 | 93.5065 | |
| cchapple-custom | INDEL | I6_15 | HG002compoundhet | het | 96.1554 | 93.2692 | 99.2258 | 33.4003 | 194 | 14 | 9869 | 77 | 72 | 93.5065 | |
| ckim-gatk | INDEL | D1_5 | HG002complexvar | * | 99.5163 | 99.3153 | 99.7181 | 58.5688 | 32491 | 224 | 32545 | 92 | 72 | 78.2609 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.2384 | 96.8903 | 88.0126 | 71.8972 | 592 | 19 | 558 | 76 | 72 | 94.7368 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.4655 | 91.2162 | 60.1093 | 74.5125 | 135 | 13 | 110 | 73 | 72 | 98.6301 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| gduggal-snapvard | SNP | * | segdup | * | 98.2794 | 97.3955 | 99.1795 | 93.1728 | 27336 | 731 | 27076 | 224 | 72 | 32.1429 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | * | 86.8868 | 95.2476 | 79.8754 | 91.6627 | 4770 | 238 | 4743 | 1195 | 72 | 6.0251 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | * | 86.9758 | 95.2325 | 80.0366 | 91.7380 | 4834 | 242 | 4807 | 1199 | 73 | 6.0884 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002compoundhet | homalt | 7.5000 | 100.0000 | 3.8961 | 67.2340 | 3 | 0 | 3 | 74 | 73 | 98.6486 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.0618 | 78.8133 | 94.7787 | 77.2212 | 2723 | 732 | 2741 | 151 | 73 | 48.3444 | |
| ghariani-varprowl | INDEL | * | map_l125_m1_e0 | het | 91.1754 | 97.9026 | 85.3133 | 91.4837 | 1307 | 28 | 1307 | 225 | 73 | 32.4444 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 78.8161 | 88.4841 | 71.0526 | 89.1898 | 753 | 98 | 729 | 297 | 73 | 24.5791 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e0 | * | 95.0420 | 97.9501 | 92.3015 | 80.3208 | 16151 | 338 | 16102 | 1343 | 73 | 5.4356 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.7234 | 98.5247 | 93.0769 | 67.4612 | 6144 | 92 | 5324 | 396 | 73 | 18.4343 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.2302 | 99.3206 | 84.3587 | 81.4184 | 14472 | 99 | 13726 | 2545 | 73 | 2.8684 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.2302 | 99.3206 | 84.3587 | 81.4184 | 14472 | 99 | 13726 | 2545 | 73 | 2.8684 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e1 | het | 90.4455 | 98.4375 | 83.6538 | 91.9035 | 1386 | 22 | 1392 | 272 | 73 | 26.8382 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.7303 | 76.4706 | 57.6355 | 72.3810 | 117 | 36 | 117 | 86 | 73 | 84.8837 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.0622 | 99.8912 | 96.2989 | 47.9935 | 2755 | 3 | 2758 | 106 | 73 | 68.8679 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | homalt | 99.9052 | 99.8382 | 99.9722 | 19.7176 | 288107 | 467 | 288052 | 80 | 73 | 91.2500 | |
| jpowers-varprowl | INDEL | * | map_l125_m1_e0 | het | 92.8465 | 93.3333 | 92.3647 | 89.2132 | 1246 | 89 | 1246 | 103 | 73 | 70.8738 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | het | 99.5676 | 99.3876 | 99.7482 | 58.0104 | 45929 | 283 | 45560 | 115 | 73 | 63.4783 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3981 | 99.0572 | 99.7414 | 71.0854 | 30471 | 290 | 30469 | 79 | 73 | 92.4051 | |
| qzeng-custom | SNP | * | HG002compoundhet | het | 97.8777 | 97.6372 | 98.1193 | 49.7459 | 13843 | 335 | 16591 | 318 | 73 | 22.9560 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1911 | 97.7409 | 98.6454 | 80.0759 | 10557 | 244 | 10559 | 145 | 73 | 50.3448 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.0917 | 93.8776 | 79.4984 | 70.7309 | 2024 | 132 | 2187 | 564 | 73 | 12.9433 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e1 | het | 74.8844 | 63.0388 | 92.2118 | 79.9750 | 1477 | 866 | 1480 | 125 | 73 | 58.4000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.9616 | 93.1237 | 98.9779 | 28.5807 | 7611 | 562 | 7650 | 79 | 73 | 92.4051 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.4617 | 94.1911 | 98.8445 | 26.3329 | 6486 | 400 | 6501 | 76 | 73 | 96.0526 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.5312 | 73.0273 | 87.3070 | 53.3227 | 509 | 188 | 509 | 74 | 73 | 98.6486 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.7848 | 98.4043 | 80.8786 | 56.7114 | 185 | 3 | 313 | 74 | 73 | 98.6486 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4067 | 97.3876 | 99.4474 | 67.5648 | 15657 | 420 | 15658 | 87 | 73 | 83.9080 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4067 | 97.3876 | 99.4474 | 67.5648 | 15657 | 420 | 15658 | 87 | 73 | 83.9080 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002compoundhet | het | 87.9457 | 99.2593 | 78.9474 | 58.5057 | 402 | 3 | 285 | 76 | 73 | 96.0526 | |
| anovak-vg | SNP | ti | segdup | homalt | 98.8024 | 98.6009 | 99.0047 | 87.1313 | 7400 | 105 | 7361 | 74 | 73 | 98.6486 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 23.8482 | 94.6807 | 0 | 1 | 88 | 281 | 73 | 25.9786 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 38.8235 | 55.9322 | 29.7297 | 69.0808 | 33 | 26 | 33 | 78 | 73 | 93.5897 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 12.2983 | 7.6493 | 31.3559 | 74.7323 | 41 | 495 | 37 | 81 | 73 | 90.1235 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 23.8482 | 94.6807 | 0 | 1 | 88 | 281 | 73 | 25.9786 | |
| ciseli-custom | SNP | tv | map_l100_m1_e0 | het | 78.9799 | 73.9962 | 84.6833 | 75.5859 | 11408 | 4009 | 11406 | 2063 | 73 | 3.5385 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | * | 96.2019 | 94.8456 | 97.5976 | 55.0867 | 4545 | 247 | 4550 | 112 | 73 | 65.1786 | |