PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57751-57800 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.3421 | 93.0894 | 97.7064 | 87.3182 | 229 | 17 | 213 | 5 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5652 | 99.5652 | 99.5652 | 67.4221 | 229 | 1 | 229 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | map_siren | hetalt | 96.2185 | 92.7126 | 100.0000 | 87.6338 | 229 | 18 | 231 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.1339 | 92.7126 | 97.6852 | 79.5455 | 229 | 18 | 211 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3492 | 99.5652 | 99.1342 | 68.2256 | 229 | 1 | 229 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.5559 | 93.0894 | 98.1567 | 87.7884 | 229 | 17 | 213 | 4 | 0 | 0.0000 | |
| anovak-vg | INDEL | * | map_l125_m0_e0 | homalt | 73.9644 | 80.6338 | 68.3140 | 87.4544 | 229 | 55 | 235 | 109 | 101 | 92.6606 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m1_e0 | het | 63.4349 | 47.1193 | 97.0339 | 78.6038 | 229 | 257 | 229 | 7 | 4 | 57.1429 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.0220 | 94.6281 | 97.4576 | 65.7475 | 229 | 13 | 230 | 6 | 3 | 50.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.5924 | 80.0699 | 99.1453 | 49.0196 | 229 | 57 | 232 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.3320 | 93.0894 | 97.6852 | 88.7676 | 229 | 17 | 211 | 5 | 3 | 60.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3492 | 99.5652 | 99.1342 | 68.6141 | 229 | 1 | 229 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.1490 | 92.7126 | 97.7169 | 78.3168 | 229 | 18 | 214 | 5 | 2 | 40.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m2_e1 | homalt | 95.4167 | 92.3387 | 98.7069 | 85.2605 | 229 | 19 | 229 | 3 | 1 | 33.3333 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m2_e1 | homalt | 94.8240 | 92.3387 | 97.4468 | 85.7230 | 229 | 19 | 229 | 6 | 1 | 16.6667 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 25.7297 | 17.3354 | 49.8866 | 62.4361 | 229 | 1092 | 220 | 221 | 16 | 7.2398 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.6277 | 88.7597 | 77.2881 | 67.7243 | 229 | 29 | 228 | 67 | 46 | 68.6567 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9201 | 99.5652 | 98.2833 | 73.0012 | 229 | 1 | 229 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | * | map_siren | hetalt | 96.2185 | 92.7126 | 100.0000 | 86.2007 | 229 | 18 | 231 | 0 | 0 | ||
| ciseli-custom | INDEL | D1_5 | map_l125_m0_e0 | het | 72.3571 | 66.6667 | 79.1096 | 93.4101 | 230 | 115 | 231 | 61 | 11 | 18.0328 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 72.0288 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 72.0288 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 94.0695 | 89.1473 | 99.5671 | 45.7746 | 230 | 28 | 230 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 80.7760 | 79.8611 | 81.7121 | 72.0348 | 230 | 58 | 210 | 47 | 30 | 63.8298 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 71.6889 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D6_15 | map_siren | het | 83.2384 | 82.1429 | 84.3636 | 79.3233 | 230 | 50 | 232 | 43 | 33 | 76.7442 | |
| qzeng-custom | INDEL | I16_PLUS | HG002complexvar | hetalt | 80.5997 | 68.6567 | 97.5728 | 58.5513 | 230 | 105 | 201 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.3517 | 93.1174 | 97.6959 | 79.6053 | 230 | 17 | 212 | 5 | 3 | 60.0000 | |
| hfeng-pmm1 | INDEL | * | map_siren | hetalt | 96.4361 | 93.1174 | 100.0000 | 87.5803 | 230 | 17 | 232 | 0 | 0 | ||
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7831 | 100.0000 | 99.5671 | 71.3400 | 230 | 0 | 230 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9161 | 93.4959 | 96.3801 | 87.9826 | 230 | 16 | 213 | 8 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.1378 | 93.1174 | 97.2477 | 79.5880 | 230 | 17 | 212 | 6 | 4 | 66.6667 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 72.0958 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | * | map_siren | hetalt | 96.0386 | 93.1174 | 99.1489 | 87.5133 | 230 | 17 | 233 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 71.6889 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5671 | 100.0000 | 99.1379 | 69.7128 | 230 | 0 | 230 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 23.4714 | 18.6688 | 31.6005 | 60.9925 | 230 | 1002 | 231 | 500 | 487 | 97.4000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 71.7576 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 65.8938 | 49.7835 | 97.4194 | 62.0098 | 230 | 232 | 302 | 8 | 8 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 49.6249 | 35.0531 | 84.9315 | 68.9362 | 231 | 428 | 62 | 11 | 11 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 49.6249 | 35.0531 | 84.9315 | 68.9362 | 231 | 428 | 62 | 11 | 11 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 62.1803 | 46.4789 | 93.9024 | 80.7963 | 231 | 266 | 231 | 15 | 9 | 60.0000 | |
| bgallagher-sentieon | INDEL | * | map_siren | hetalt | 96.4527 | 93.5223 | 99.5726 | 86.1210 | 231 | 16 | 233 | 1 | 0 | 0.0000 | |
| anovak-vg | INDEL | * | map_l250_m2_e0 | * | 67.7533 | 69.7885 | 65.8333 | 96.4399 | 231 | 100 | 237 | 123 | 63 | 51.2195 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l100_m1_e0 | * | 90.3034 | 89.5349 | 91.0853 | 85.3075 | 231 | 27 | 235 | 23 | 11 | 47.8261 | |
| mlin-fermikit | INDEL | I6_15 | map_siren | * | 81.7172 | 75.7377 | 88.7218 | 80.5981 | 231 | 74 | 236 | 30 | 28 | 93.3333 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 97.8885 | 97.4684 | 98.3122 | 25.4717 | 231 | 6 | 233 | 4 | 4 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.4240 | 70.4268 | 96.4912 | 53.1250 | 231 | 97 | 275 | 10 | 8 | 80.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 23.7011 | 34.8943 | 17.9449 | 88.9091 | 231 | 431 | 241 | 1102 | 10 | 0.9074 | |
| raldana-dualsentieon | INDEL | D16_PLUS | HG002complexvar | hetalt | 96.3423 | 93.5223 | 99.3377 | 47.4478 | 231 | 16 | 450 | 3 | 3 | 100.0000 | |