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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74351-74400 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.9204 | 86.8267 | 99.9340 | 30.1521 | 1483 | 225 | 1514 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9545 | 96.0747 | 99.9093 | 57.3738 | 5507 | 225 | 5507 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.1335 | 74.1972 | 99.8510 | 26.9063 | 647 | 225 | 670 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.8193 | 92.4187 | 97.3479 | 49.5090 | 2755 | 226 | 2753 | 75 | 52 | 69.3333 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 67.5753 | 0.0000 | 0.0000 | 471 | 226 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8288 | 98.4539 | 97.2116 | 67.2453 | 14391 | 226 | 14015 | 402 | 380 | 94.5274 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.1492 | 94.2273 | 98.1512 | 80.5335 | 3689 | 226 | 3610 | 68 | 32 | 47.0588 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.3020 | 94.5490 | 92.0875 | 85.9655 | 3920 | 226 | 3829 | 329 | 86 | 26.1398 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | het | 99.2145 | 99.5129 | 98.9179 | 70.0977 | 46173 | 226 | 46162 | 505 | 63 | 12.4752 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | het | 99.2207 | 99.5181 | 98.9251 | 70.1134 | 46672 | 226 | 46661 | 507 | 63 | 12.4260 | |
| bgallagher-sentieon | SNP | ti | map_siren | het | 99.4766 | 99.6377 | 99.3160 | 56.6817 | 62156 | 226 | 62147 | 428 | 50 | 11.6822 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | het | 88.1603 | 83.0712 | 93.9138 | 91.7400 | 1109 | 226 | 1111 | 72 | 7 | 9.7222 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9233 | 98.8811 | 98.9655 | 57.0313 | 19973 | 226 | 19994 | 209 | 5 | 2.3923 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e1 | het | 82.2394 | 70.6494 | 98.3784 | 89.0597 | 544 | 226 | 546 | 9 | 3 | 33.3333 | |
| egarrison-hhga | SNP | * | map_l125_m0_e0 | het | 98.9341 | 98.2154 | 99.6635 | 75.5931 | 12438 | 226 | 12438 | 42 | 17 | 40.4762 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 86.7681 | 0.0000 | 0.0000 | 1482 | 226 | 0 | 0 | 0 | ||
| ciseli-custom | SNP | ti | segdup | * | 97.2840 | 98.8381 | 95.7779 | 90.5362 | 19310 | 227 | 19237 | 848 | 118 | 13.9151 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.1779 | 95.3254 | 70.6870 | 69.0825 | 4629 | 227 | 4671 | 1937 | 164 | 8.4667 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1731 | 97.9516 | 98.3956 | 52.7295 | 10855 | 227 | 10855 | 177 | 173 | 97.7401 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.7110 | 86.7096 | 99.6050 | 29.5781 | 1481 | 227 | 1513 | 6 | 6 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l150_m2_e0 | * | 98.2329 | 98.8933 | 97.5811 | 78.1929 | 20285 | 227 | 20292 | 503 | 67 | 13.3201 | |
| 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-isaac | INDEL | * | map_l150_m2_e0 | homalt | 68.8347 | 52.8067 | 98.8327 | 85.5211 | 254 | 227 | 254 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 60.3108 | 43.3915 | 98.8571 | 88.9937 | 174 | 227 | 173 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 91.0595 | 83.5864 | 100.0000 | 65.1965 | 1156 | 227 | 1160 | 0 | 0 | ||
| gduggal-bwafb | INDEL | * | map_siren | het | 96.6142 | 94.9645 | 98.3223 | 79.9104 | 4281 | 227 | 4454 | 76 | 20 | 26.3158 | |
| jli-custom | SNP | ti | map_l150_m2_e0 | * | 99.2101 | 98.8933 | 99.5289 | 73.1343 | 20285 | 227 | 20283 | 96 | 36 | 37.5000 | |
| jli-custom | SNP | ti | map_l150_m2_e1 | * | 99.2158 | 98.9046 | 99.5289 | 73.2251 | 20496 | 227 | 20494 | 97 | 36 | 37.1134 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 2.5751 | 0.0000 | 0.0000 | 6 | 227 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.5638 | 41.4948 | 68.0851 | 72.2550 | 161 | 227 | 160 | 75 | 74 | 98.6667 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002complexvar | het | 95.8678 | 92.7244 | 99.2318 | 57.2218 | 2893 | 227 | 2842 | 22 | 17 | 77.2727 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | het | 93.8309 | 98.9295 | 89.2321 | 81.9092 | 20978 | 227 | 20974 | 2531 | 189 | 7.4674 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.2050 | 96.8677 | 97.5447 | 33.7225 | 7020 | 227 | 7032 | 177 | 164 | 92.6554 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.7862 | 96.4642 | 95.1177 | 63.6639 | 6193 | 227 | 14027 | 720 | 615 | 85.4167 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.7862 | 96.4642 | 95.1177 | 63.6639 | 6193 | 227 | 14027 | 720 | 615 | 85.4167 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.6857 | 66.9578 | 87.0301 | 80.4555 | 460 | 227 | 463 | 69 | 64 | 92.7536 | |
| gduggal-snapfb | SNP | tv | map_l125_m1_e0 | homalt | 97.7782 | 96.1263 | 99.4878 | 77.1149 | 5633 | 227 | 5633 | 29 | 7 | 24.1379 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.8372 | 90.5887 | 97.3274 | 60.9904 | 2185 | 227 | 2185 | 60 | 44 | 73.3333 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1129 | 91.7634 | 94.5026 | 50.6095 | 2529 | 227 | 2527 | 147 | 143 | 97.2789 | |
| raldana-dualsentieon | INDEL | I16_PLUS | HG002compoundhet | hetalt | 94.2662 | 89.1543 | 100.0000 | 44.8215 | 1866 | 227 | 1886 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0766 | 94.3658 | 99.9478 | 25.1564 | 3802 | 227 | 3827 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 12.8639 | 7.7236 | 38.4615 | 59.1928 | 19 | 227 | 35 | 56 | 6 | 10.7143 | |
| anovak-vg | INDEL | D1_5 | map_siren | het | 86.2774 | 89.9868 | 82.8617 | 80.2332 | 2049 | 228 | 2079 | 430 | 142 | 33.0233 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.2998 | 97.7430 | 96.8606 | 48.6593 | 9874 | 228 | 10089 | 327 | 264 | 80.7339 | |
| jli-custom | SNP | * | map_l150_m0_e0 | * | 98.7204 | 98.1051 | 99.3435 | 75.0933 | 11804 | 228 | 11804 | 78 | 29 | 37.1795 | |
| ltrigg-rtg1 | INDEL | I1_5 | * | homalt | 99.7620 | 99.6227 | 99.9017 | 50.6392 | 60199 | 228 | 59978 | 59 | 47 | 79.6610 | |
| ckim-dragen | SNP | ti | map_l100_m2_e0 | het | 98.1149 | 99.2554 | 97.0004 | 73.1660 | 30394 | 228 | 30397 | 940 | 87 | 9.2553 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8013 | 97.5893 | 98.0142 | 45.3295 | 9230 | 228 | 9230 | 187 | 180 | 96.2567 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m1_e0 | het | 74.8992 | 68.5950 | 82.4793 | 92.0478 | 498 | 228 | 499 | 106 | 22 | 20.7547 | |