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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53801-53850 / 86044 show all | |||||||||||||||
| jli-custom | SNP | ti | map_l250_m1_e0 | het | 97.6625 | 96.4286 | 98.9284 | 86.8086 | 2862 | 106 | 2862 | 31 | 16 | 51.6129 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e1 | het | 97.4472 | 97.3011 | 97.5938 | 86.8092 | 1370 | 38 | 1379 | 34 | 9 | 26.4706 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 66.7081 | 53.2787 | 89.1892 | 86.8093 | 65 | 57 | 66 | 8 | 8 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m2_e0 | * | 96.8435 | 94.7977 | 98.9796 | 86.8102 | 492 | 27 | 485 | 5 | 1 | 20.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.4777 | 92.0158 | 88.9901 | 86.8129 | 1164 | 101 | 1172 | 145 | 90 | 62.0690 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l125_m2_e1 | homalt | 98.6301 | 97.2973 | 100.0000 | 86.8132 | 36 | 1 | 36 | 0 | 0 | ||
| ciseli-custom | INDEL | D1_5 | map_l125_m2_e1 | homalt | 81.9169 | 82.5269 | 81.3158 | 86.8147 | 307 | 65 | 309 | 71 | 59 | 83.0986 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.8148 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m0_e0 | het | 90.4803 | 98.5003 | 83.6680 | 86.8150 | 4335 | 66 | 4334 | 846 | 47 | 5.5556 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 47.3830 | 86.3690 | 32.6467 | 86.8151 | 735 | 116 | 729 | 1504 | 49 | 3.2580 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0545 | 96.8421 | 97.2678 | 86.8156 | 92 | 3 | 178 | 5 | 4 | 80.0000 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | ti | map_l250_m2_e0 | homalt | 98.6412 | 97.5415 | 99.7661 | 86.8218 | 1706 | 43 | 1706 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l100_m1_e0 | * | 95.9276 | 92.9825 | 99.0654 | 86.8227 | 106 | 8 | 106 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m0_e0 | het | 95.8669 | 96.3542 | 95.3846 | 86.8243 | 185 | 7 | 186 | 9 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m1_e0 | het | 97.8277 | 99.0358 | 96.6488 | 86.8244 | 719 | 7 | 721 | 25 | 2 | 8.0000 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | het | 85.6436 | 76.9070 | 96.6195 | 86.8249 | 8116 | 2437 | 8117 | 284 | 231 | 81.3380 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_l100_m2_e0 | * | 66.6667 | 61.5385 | 72.7273 | 86.8263 | 16 | 10 | 16 | 6 | 4 | 66.6667 | |
| hfeng-pmm3 | SNP | ti | map_l250_m1_e0 | homalt | 99.5025 | 99.5644 | 99.4406 | 86.8266 | 1600 | 7 | 1600 | 9 | 2 | 22.2222 | |
| raldana-dualsentieon | INDEL | * | map_l150_m1_e0 | homalt | 98.1461 | 97.4026 | 98.9011 | 86.8269 | 450 | 12 | 450 | 5 | 2 | 40.0000 | |
| hfeng-pmm3 | INDEL | * | map_siren | hetalt | 96.0000 | 92.3077 | 100.0000 | 86.8270 | 228 | 19 | 230 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | homalt | 99.1629 | 99.4832 | 98.8447 | 86.8279 | 770 | 4 | 770 | 9 | 4 | 44.4444 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8293 | 5 | 0 | 27 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m0_e0 | * | 95.9251 | 93.7500 | 98.2036 | 86.8297 | 165 | 11 | 164 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.2622 | 98.0574 | 88.9141 | 86.8298 | 2322 | 46 | 2350 | 293 | 14 | 4.7782 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | het | 85.5513 | 76.7765 | 96.5908 | 86.8303 | 8017 | 2425 | 8018 | 283 | 230 | 81.2721 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 82.4371 | 78.7879 | 86.4407 | 86.8304 | 52 | 14 | 51 | 8 | 5 | 62.5000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | het | 97.8610 | 96.5795 | 99.1770 | 86.8328 | 480 | 17 | 482 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m0_e0 | het | 94.2548 | 95.7699 | 92.7869 | 86.8336 | 566 | 25 | 566 | 44 | 21 | 47.7273 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m2_e0 | homalt | 81.6849 | 82.4176 | 80.9651 | 86.8337 | 300 | 64 | 302 | 71 | 59 | 83.0986 | |
| cchapple-custom | INDEL | * | map_l150_m1_e0 | homalt | 97.9259 | 96.9697 | 98.9011 | 86.8345 | 448 | 14 | 450 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m2_e0 | * | 98.0117 | 96.8545 | 99.1968 | 86.8347 | 739 | 24 | 741 | 6 | 1 | 16.6667 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e1 | het | 95.3187 | 95.8661 | 94.7776 | 86.8347 | 487 | 21 | 490 | 27 | 3 | 11.1111 | |
| hfeng-pmm1 | INDEL | * | map_l150_m1_e0 | homalt | 98.8108 | 98.9177 | 98.7041 | 86.8354 | 457 | 5 | 457 | 6 | 3 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.1870 | 98.3871 | 100.0000 | 86.8365 | 61 | 1 | 62 | 0 | 0 | ||
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.1870 | 98.3871 | 100.0000 | 86.8365 | 61 | 1 | 62 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 18.1575 | 16.2675 | 20.5446 | 86.8404 | 163 | 839 | 166 | 642 | 34 | 5.2960 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m0_e0 | homalt | 72.7273 | 66.6667 | 80.0000 | 86.8421 | 4 | 2 | 4 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | segdup | * | 98.3830 | 96.8521 | 99.9630 | 86.8421 | 18922 | 615 | 18922 | 7 | 3 | 42.8571 | |
| ckim-dragen | INDEL | D6_15 | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 5 | 0 | 5 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D6_15 | map_l125_m0_e0 | hetalt | 90.9091 | 83.3333 | 100.0000 | 86.8421 | 5 | 1 | 5 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 90.9091 | 83.3333 | 100.0000 | 86.8421 | 5 | 1 | 5 | 0 | 0 | ||
| mlin-fermikit | INDEL | I16_PLUS | map_l150_m1_e0 | het | 72.7273 | 66.6667 | 80.0000 | 86.8421 | 4 | 2 | 4 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | map_l250_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 5 | 0 | 5 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | map_l250_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 5 | 0 | 5 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 15 | 0 | 15 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 15 | 0 | 15 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 15 | 0 | 15 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 86.8421 | 15 | 0 | 15 | 0 | 0 | ||