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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12951-13000 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | * | map_l100_m2_e1 | * | 91.1487 | 89.5367 | 92.8197 | 85.5685 | 3363 | 393 | 3361 | 260 | 208 | 80.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9769 | 94.1577 | 99.9702 | 43.4270 | 3320 | 206 | 3360 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9769 | 94.1577 | 99.9702 | 43.4270 | 3320 | 206 | 3360 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | homalt | 98.4034 | 99.1440 | 97.6737 | 43.8897 | 3359 | 29 | 3359 | 80 | 78 | 97.5000 | |
| mlin-fermikit | SNP | tv | map_l125_m1_e0 | homalt | 63.9810 | 57.3208 | 72.3922 | 52.9173 | 3359 | 2501 | 3359 | 1281 | 1204 | 93.9891 | |
| ghariani-varprowl | INDEL | D1_5 | map_siren | * | 93.0194 | 95.1544 | 90.9781 | 84.3263 | 3358 | 171 | 3358 | 333 | 117 | 35.1351 | |
| gduggal-snapplat | SNP | tv | map_l150_m1_e0 | homalt | 91.9496 | 85.0988 | 100.0000 | 74.0535 | 3358 | 588 | 3358 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | HG002compoundhet | homalt | 99.4223 | 99.0555 | 99.7918 | 42.9493 | 3356 | 32 | 3355 | 7 | 6 | 85.7143 | |
| ckim-gatk | SNP | tv | HG002compoundhet | homalt | 99.4517 | 99.0555 | 99.8512 | 42.9154 | 3356 | 32 | 3355 | 5 | 4 | 80.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 91.7792 | 85.7399 | 98.7338 | 51.3537 | 3349 | 557 | 3353 | 43 | 4 | 9.3023 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 61.3722 | 45.0807 | 96.1020 | 31.7355 | 3267 | 3980 | 3353 | 136 | 135 | 99.2647 | |
| gduggal-snapfb | SNP | tv | HG002compoundhet | homalt | 95.1607 | 99.2326 | 91.4099 | 54.5488 | 3362 | 26 | 3352 | 315 | 115 | 36.5079 | |
| ciseli-custom | SNP | ti | map_l250_m2_e0 | * | 70.7049 | 66.8930 | 74.9776 | 92.1064 | 3350 | 1658 | 3350 | 1118 | 211 | 18.8730 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6531 | 93.7323 | 99.7618 | 50.5158 | 3305 | 221 | 3350 | 8 | 7 | 87.5000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6531 | 93.7323 | 99.7618 | 50.5158 | 3305 | 221 | 3350 | 8 | 7 | 87.5000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 65.1217 | 48.6537 | 98.4416 | 40.4065 | 3921 | 4138 | 3348 | 53 | 40 | 75.4717 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 65.1217 | 48.6537 | 98.4416 | 40.4065 | 3921 | 4138 | 3348 | 53 | 40 | 75.4717 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.5488 | 98.1667 | 89.3458 | 72.6223 | 2945 | 55 | 3346 | 399 | 43 | 10.7769 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.0932 | 95.6186 | 98.6140 | 50.2202 | 3339 | 153 | 3344 | 47 | 36 | 76.5957 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.4019 | 71.9604 | 99.1696 | 43.2419 | 3344 | 1303 | 3344 | 28 | 26 | 92.8571 | |
| gduggal-bwaplat | SNP | ti | map_l150_m2_e1 | homalt | 60.6049 | 43.4941 | 99.9103 | 85.0982 | 3346 | 4347 | 3342 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 86.8762 | 81.9779 | 92.3970 | 60.2527 | 3266 | 718 | 3342 | 275 | 210 | 76.3636 | |
| ckim-vqsr | SNP | * | map_l250_m2_e0 | * | 59.1976 | 42.3843 | 98.1210 | 97.1166 | 3342 | 4543 | 3342 | 64 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | * | 90.3615 | 92.9448 | 87.9179 | 87.2169 | 3333 | 253 | 3340 | 459 | 189 | 41.1765 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6181 | 93.5621 | 99.8804 | 39.4313 | 3299 | 227 | 3340 | 4 | 4 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6181 | 93.5621 | 99.8804 | 39.4313 | 3299 | 227 | 3340 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6029 | 93.5337 | 99.8803 | 39.4384 | 3298 | 228 | 3339 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6029 | 93.5337 | 99.8803 | 39.4384 | 3298 | 228 | 3339 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 91.9813 | 85.4583 | 99.5823 | 47.6985 | 3338 | 568 | 3338 | 14 | 1 | 7.1429 | |
| mlin-fermikit | SNP | tv | HG002compoundhet | homalt | 90.3108 | 98.4357 | 83.4250 | 51.0104 | 3335 | 53 | 3337 | 663 | 585 | 88.2353 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.3322 | 93.7096 | 94.9630 | 67.1681 | 3337 | 224 | 3337 | 177 | 170 | 96.0452 | |
| gduggal-snapplat | SNP | * | map_l150_m0_e0 | homalt | 89.7981 | 81.5847 | 99.8503 | 78.9397 | 3336 | 753 | 3336 | 5 | 5 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l150_m1_e0 | het | 42.4790 | 26.9846 | 99.7608 | 94.8360 | 3338 | 9032 | 3336 | 8 | 4 | 50.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.5714 | 93.4487 | 99.9101 | 42.6066 | 3295 | 231 | 3335 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.5714 | 93.4487 | 99.9101 | 42.6066 | 3295 | 231 | 3335 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 51.9644 | 35.2064 | 99.1674 | 46.2264 | 3352 | 6169 | 3335 | 28 | 25 | 89.2857 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.7062 | 94.1759 | 97.2870 | 68.5937 | 3331 | 206 | 3335 | 93 | 84 | 90.3226 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.5842 | 93.4203 | 99.9700 | 43.5033 | 3294 | 232 | 3334 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.5842 | 93.4203 | 99.9700 | 43.5033 | 3294 | 232 | 3334 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1156 | 95.4467 | 98.8438 | 53.2567 | 3333 | 159 | 3334 | 39 | 32 | 82.0513 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.5539 | 93.3636 | 99.9700 | 43.1520 | 3292 | 234 | 3332 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.5539 | 93.3636 | 99.9700 | 43.1520 | 3292 | 234 | 3332 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.5216 | 89.4845 | 95.7722 | 64.1176 | 3489 | 410 | 3330 | 147 | 104 | 70.7483 | |
| qzeng-custom | INDEL | I1_5 | HG002compoundhet | hetalt | 84.6325 | 73.4723 | 99.7902 | 54.7416 | 8212 | 2965 | 3329 | 7 | 5 | 71.4286 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9663 | 95.1890 | 98.8113 | 52.9502 | 3324 | 168 | 3325 | 40 | 33 | 82.5000 | |
| ltrigg-rtg2 | SNP | tv | HG002compoundhet | homalt | 99.4361 | 98.9079 | 99.9699 | 40.5831 | 3351 | 37 | 3321 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 91.8726 | 90.2567 | 93.5475 | 72.9167 | 3270 | 353 | 3320 | 229 | 219 | 95.6332 | |
| eyeh-varpipe | INDEL | I6_15 | HG002complexvar | * | 76.1535 | 69.3656 | 84.4139 | 46.8082 | 3324 | 1468 | 3320 | 613 | 606 | 98.8581 | |
| ghariani-varprowl | INDEL | * | map_l100_m1_e0 | * | 90.4036 | 92.6380 | 88.2744 | 91.8947 | 3322 | 264 | 3320 | 441 | 203 | 46.0317 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e1 | * | 92.1115 | 87.8860 | 96.7638 | 96.1058 | 3301 | 455 | 3319 | 111 | 17 | 15.3153 | |