PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19901-19950 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | * | map_l150_m1_e0 | * | 96.2213 | 96.0389 | 96.4045 | 93.0291 | 1285 | 53 | 1287 | 48 | 6 | 12.5000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 73.2771 | 59.8485 | 94.4751 | 88.1311 | 79 | 53 | 171 | 10 | 9 | 90.0000 | |
| ckim-vqsr | SNP | * | func_cds | * | 99.7574 | 99.7080 | 99.8069 | 31.6969 | 18097 | 53 | 18094 | 35 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5515 | 99.1544 | 99.9518 | 47.1169 | 6215 | 53 | 6215 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 96.9784 | 94.5248 | 99.5628 | 57.7562 | 915 | 53 | 911 | 4 | 2 | 50.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.7510 | 97.9167 | 99.5997 | 47.1770 | 2491 | 53 | 2488 | 10 | 1 | 10.0000 | |
| mlin-fermikit | SNP | tv | HG002compoundhet | homalt | 90.3108 | 98.4357 | 83.4250 | 51.0104 | 3335 | 53 | 3337 | 663 | 585 | 88.2353 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.9278 | 99.0227 | 93.0204 | 76.6292 | 5370 | 53 | 5371 | 403 | 345 | 85.6079 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.9278 | 99.0227 | 93.0204 | 76.6292 | 5370 | 53 | 5371 | 403 | 345 | 85.6079 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6574 | 99.7082 | 97.6284 | 65.7023 | 18113 | 53 | 18113 | 440 | 428 | 97.2727 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6574 | 99.7082 | 97.6284 | 65.7023 | 18113 | 53 | 18113 | 440 | 428 | 97.2727 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5343 | 99.4751 | 99.5935 | 60.5291 | 10044 | 53 | 10045 | 41 | 39 | 95.1220 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2827 | 98.8697 | 99.6991 | 37.4429 | 4636 | 53 | 4639 | 14 | 4 | 28.5714 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1203 | 98.5371 | 97.7070 | 73.4654 | 3570 | 53 | 3835 | 90 | 21 | 23.3333 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002complexvar | hetalt | 98.0883 | 96.9293 | 99.2754 | 77.2008 | 1673 | 53 | 1918 | 14 | 14 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0229 | 97.8447 | 98.2019 | 70.5216 | 2406 | 53 | 2403 | 44 | 6 | 13.6364 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2624 | 99.1501 | 99.3749 | 64.2935 | 6183 | 53 | 6200 | 39 | 5 | 12.8205 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 39.1304 | 25.3521 | 85.7143 | 57.1429 | 18 | 53 | 18 | 3 | 3 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | map_siren | * | 82.8301 | 89.5874 | 77.0206 | 83.5033 | 456 | 53 | 486 | 145 | 21 | 14.4828 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.4289 | 78.4553 | 80.4270 | 61.9241 | 193 | 53 | 678 | 165 | 80 | 48.4848 | |
| hfeng-pmm3 | SNP | ti | map_l150_m0_e0 | het | 99.0183 | 98.9602 | 99.0764 | 81.1323 | 5044 | 53 | 5042 | 47 | 2 | 4.2553 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7378 | 99.5218 | 99.9547 | 55.5264 | 11031 | 53 | 11028 | 5 | 1 | 20.0000 | |
| jlack-gatk | SNP | ti | map_l250_m2_e0 | het | 92.2213 | 98.3712 | 86.7950 | 94.0302 | 3201 | 53 | 3201 | 487 | 40 | 8.2136 | |
| hfeng-pmm1 | SNP | * | segdup | het | 99.6248 | 99.6939 | 99.5558 | 89.5848 | 17264 | 53 | 17258 | 77 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | tv | map_l125_m0_e0 | het | 98.4153 | 98.7957 | 98.0379 | 79.2988 | 4348 | 53 | 4347 | 87 | 9 | 10.3448 | |
| hfeng-pmm3 | INDEL | * | map_siren | het | 98.9897 | 98.8243 | 99.1556 | 80.3605 | 4455 | 53 | 4462 | 38 | 4 | 10.5263 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.6892 | 96.0886 | 97.2973 | 79.6160 | 1302 | 53 | 1188 | 33 | 29 | 87.8788 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 53 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.1549 | 89.1170 | 62.0422 | 57.0748 | 434 | 53 | 559 | 342 | 258 | 75.4386 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 36.9048 | 0.0000 | 0.0000 | 31 | 53 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I1_5 | map_l100_m2_e1 | homalt | 94.4587 | 90.1852 | 99.1573 | 74.3238 | 487 | 53 | 706 | 6 | 3 | 50.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 13.1148 | 0.0000 | 0.0000 | 8 | 53 | 0 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 91.4497 | 97.5621 | 86.0581 | 72.6726 | 2121 | 53 | 2074 | 336 | 8 | 2.3810 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 82.2695 | 94.2516 | 72.9904 | 73.0327 | 869 | 53 | 908 | 336 | 30 | 8.9286 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 86.5961 | 80.0752 | 94.2731 | 78.2359 | 213 | 53 | 214 | 13 | 13 | 100.0000 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 53 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | ti | segdup | het | 97.4023 | 99.5594 | 95.3366 | 92.6943 | 11977 | 53 | 11980 | 586 | 2 | 0.3413 | |
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.9642 | 97.6007 | 96.3360 | 64.2948 | 2156 | 53 | 2156 | 82 | 77 | 93.9024 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 17.8082 | 19.6970 | 16.2500 | 98.7063 | 13 | 53 | 13 | 67 | 2 | 2.9851 | |
| gduggal-snapvard | INDEL | * | map_l100_m0_e0 | het | 83.1200 | 94.8090 | 73.9970 | 89.3957 | 968 | 53 | 1457 | 512 | 171 | 33.3984 | |
| gduggal-snapvard | INDEL | D16_PLUS | segdup | * | 14.0845 | 8.6207 | 38.4615 | 94.9807 | 5 | 53 | 5 | 8 | 4 | 50.0000 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 91.9883 | 99.2888 | 85.6879 | 49.6867 | 7399 | 53 | 7430 | 1241 | 43 | 3.4650 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e1 | homalt | 95.5600 | 93.1525 | 98.0952 | 83.9590 | 721 | 53 | 721 | 14 | 5 | 35.7143 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_siren | * | 63.0655 | 62.9371 | 63.1944 | 94.7137 | 90 | 53 | 91 | 53 | 38 | 71.6981 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 31.8050 | 60.7407 | 21.5426 | 49.5302 | 82 | 53 | 81 | 295 | 292 | 98.9831 | |
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 52 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 52 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 32.0725 | 30.6667 | 33.6134 | 68.6842 | 23 | 52 | 40 | 79 | 44 | 55.6962 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 18.4211 | 11.8644 | 41.1765 | 77.0270 | 7 | 52 | 7 | 10 | 4 | 40.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m1_e0 | het | 18.3007 | 11.8644 | 40.0000 | 93.4211 | 7 | 52 | 6 | 9 | 0 | 0.0000 | |