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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57651-57700 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D1_5 | map_l150_m1_e0 | homalt | 97.7738 | 96.4912 | 99.0909 | 85.2646 | 220 | 8 | 218 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 86.0000 | 76.2299 | 98.6425 | 50.7795 | 1472 | 459 | 218 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 86.0000 | 76.2299 | 98.6425 | 50.7795 | 1472 | 459 | 218 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 59.7518 | 76.0417 | 49.2099 | 69.9253 | 219 | 69 | 218 | 225 | 200 | 88.8889 | |
| jpowers-varprowl | INDEL | D16_PLUS | HG002complexvar | homalt | 80.0982 | 75.0865 | 85.8268 | 71.4607 | 217 | 72 | 218 | 36 | 33 | 91.6667 | |
| jmaeng-gatk | INDEL | * | map_siren | hetalt | 93.3045 | 87.4494 | 100.0000 | 86.8039 | 216 | 31 | 218 | 0 | 0 | ||
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.8551 | 92.7602 | 67.0769 | 92.6287 | 205 | 16 | 218 | 107 | 21 | 19.6262 | |
| ghariani-varprowl | INDEL | D16_PLUS | HG002complexvar | homalt | 80.0982 | 75.0865 | 85.8268 | 71.4927 | 217 | 72 | 218 | 36 | 33 | 91.6667 | |
| gduggal-snapplat | INDEL | * | map_l250_m1_e0 | * | 76.0632 | 67.8689 | 86.5079 | 98.0285 | 207 | 98 | 218 | 34 | 5 | 14.7059 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 41.0672 | 32.1689 | 56.7708 | 80.9901 | 221 | 466 | 218 | 166 | 160 | 96.3855 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e0 | het | 82.4197 | 70.5502 | 99.0909 | 92.6224 | 218 | 91 | 218 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.4542 | 76.7025 | 96.4602 | 65.3905 | 214 | 65 | 218 | 8 | 7 | 87.5000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0618 | 95.9514 | 98.1982 | 81.3445 | 237 | 10 | 218 | 4 | 2 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.8462 | 95.9514 | 97.7578 | 81.0374 | 237 | 10 | 218 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.6396 | 95.5466 | 97.7578 | 80.8255 | 236 | 11 | 218 | 5 | 3 | 60.0000 | |
| anovak-vg | INDEL | * | map_l250_m1_e0 | * | 66.8127 | 69.1803 | 64.6018 | 96.2450 | 211 | 94 | 219 | 120 | 61 | 50.8333 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m2_e0 | homalt | 94.6004 | 90.4959 | 99.0950 | 89.2457 | 219 | 23 | 219 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.1091 | 95.0450 | 93.1915 | 72.5788 | 211 | 11 | 219 | 16 | 4 | 25.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 41.4919 | 29.6496 | 69.0852 | 68.2046 | 220 | 522 | 219 | 98 | 82 | 83.6735 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.8589 | 78.9855 | 96.4758 | 90.1732 | 218 | 58 | 219 | 8 | 0 | 0.0000 | |
| jli-custom | INDEL | * | map_siren | hetalt | 93.3352 | 87.8543 | 99.5455 | 87.1345 | 217 | 30 | 219 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.0038 | 78.1362 | 95.6332 | 65.1976 | 218 | 61 | 219 | 10 | 9 | 90.0000 | |
| mlin-fermikit | INDEL | * | map_l150_m0_e0 | * | 55.2333 | 42.6070 | 78.4946 | 86.0290 | 219 | 295 | 219 | 60 | 41 | 68.3333 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 91.0757 | 96.0870 | 86.5613 | 76.5524 | 221 | 9 | 219 | 34 | 27 | 79.4118 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.9203 | 85.7143 | 99.0950 | 48.1221 | 222 | 37 | 219 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.0103 | 96.5217 | 99.5455 | 56.9472 | 222 | 8 | 219 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002complexvar | hetalt | 28.7793 | 17.0040 | 93.5897 | 61.3861 | 42 | 205 | 219 | 15 | 15 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 68.8100 | 56.9519 | 86.9048 | 56.7753 | 213 | 161 | 219 | 33 | 31 | 93.9394 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 43.3731 | 29.1284 | 84.8837 | 60.6107 | 127 | 309 | 219 | 39 | 39 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 67.1080 | 54.2510 | 87.9518 | 61.8098 | 134 | 113 | 219 | 30 | 30 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | map_l150_m1_e0 | homalt | 64.3172 | 47.4026 | 100.0000 | 93.7819 | 219 | 243 | 219 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 47.5592 | 44.5161 | 51.0490 | 71.9424 | 69 | 86 | 219 | 210 | 175 | 83.3333 | |
| gduggal-snapplat | INDEL | * | map_l125_m0_e0 | homalt | 81.8078 | 70.7746 | 96.9163 | 92.3518 | 201 | 83 | 220 | 7 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 25.7297 | 17.3354 | 49.8866 | 62.4361 | 229 | 1092 | 220 | 221 | 16 | 7.2398 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1814 | 73.6559 | 85.6031 | 65.5957 | 137 | 49 | 220 | 37 | 23 | 62.1622 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | homalt | 67.7742 | 51.3761 | 99.5475 | 94.9738 | 224 | 212 | 220 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.9094 | 96.7480 | 99.0991 | 88.2228 | 238 | 8 | 220 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.3493 | 75.9857 | 97.3451 | 70.8010 | 212 | 67 | 220 | 6 | 6 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e0 | het | 49.5663 | 40.2414 | 64.5161 | 91.8362 | 200 | 297 | 220 | 121 | 15 | 12.3967 | |
| cchapple-custom | INDEL | * | func_cds | het | 98.6264 | 98.5981 | 98.6547 | 47.0309 | 211 | 3 | 220 | 3 | 1 | 33.3333 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 96.0039 | 92.7039 | 99.5475 | 76.9311 | 216 | 17 | 220 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | * | hetalt | 86.0203 | 76.2545 | 98.6547 | 50.8811 | 1474 | 459 | 220 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | map_l100_m1_e0 | * | 89.1165 | 82.1705 | 97.3451 | 85.2480 | 212 | 46 | 220 | 6 | 3 | 50.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | HG002compoundhet | hetalt | 60.2626 | 43.8127 | 96.4912 | 42.7136 | 917 | 1176 | 220 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.5858 | 77.4194 | 98.2143 | 59.5668 | 216 | 63 | 220 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_siren | hetalt | 93.4218 | 89.0688 | 98.2222 | 87.9936 | 220 | 27 | 221 | 4 | 1 | 25.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | het | 49.1777 | 39.7638 | 64.4315 | 91.9559 | 202 | 306 | 221 | 122 | 15 | 12.2951 | |
| ciseli-custom | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 30.2740 | 87.3110 | 0 | 0 | 221 | 509 | 139 | 27.3084 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 36.9914 | 25.6716 | 66.1677 | 73.1295 | 258 | 747 | 221 | 113 | 5 | 4.4248 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4586 | 97.3913 | 99.5495 | 58.8889 | 224 | 6 | 221 | 1 | 1 | 100.0000 | |