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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68201-68250 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.3128 | 76.1578 | 96.9697 | 63.3042 | 444 | 139 | 448 | 14 | 11 | 78.5714 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 84.8955 | 75.4173 | 97.0986 | 64.6133 | 497 | 162 | 502 | 15 | 11 | 73.3333 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 82.2869 | 90.1639 | 75.6757 | 85.4331 | 55 | 6 | 56 | 18 | 11 | 61.1111 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 84.8955 | 75.4173 | 97.0986 | 64.6133 | 497 | 162 | 502 | 15 | 11 | 73.3333 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 78.8110 | 71.5116 | 87.7698 | 75.9099 | 123 | 49 | 122 | 17 | 11 | 64.7059 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 87.4155 | 81.1111 | 94.7826 | 52.9652 | 219 | 51 | 218 | 12 | 11 | 91.6667 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 51.2821 | 66.6667 | 41.6667 | 90.1639 | 10 | 5 | 10 | 14 | 11 | 78.5714 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m2_e0 | homalt | 53.6585 | 68.7500 | 44.0000 | 90.2724 | 11 | 5 | 11 | 14 | 11 | 78.5714 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 43.2314 | 69.2308 | 31.4286 | 72.4409 | 9 | 4 | 11 | 24 | 11 | 45.8333 | |
| 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 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m0_e0 | homalt | 76.5432 | 72.9412 | 80.5195 | 91.6304 | 62 | 23 | 62 | 15 | 11 | 73.3333 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 62.9804 | 73.2283 | 55.2486 | 68.8468 | 93 | 34 | 100 | 81 | 11 | 13.5802 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 27.6134 | 19.4444 | 47.6190 | 91.1579 | 21 | 87 | 20 | 22 | 11 | 50.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 7.6190 | 4.5977 | 22.2222 | 91.6667 | 4 | 83 | 4 | 14 | 11 | 78.5714 | |
| ckim-dragen | SNP | ti | map_l250_m2_e1 | het | 96.3677 | 97.2719 | 95.4802 | 91.4419 | 3209 | 90 | 3211 | 152 | 11 | 7.2368 | |
| ckim-dragen | SNP | tv | map_l250_m1_e0 | * | 97.1159 | 97.3177 | 96.9150 | 89.2026 | 2576 | 71 | 2576 | 82 | 11 | 13.4146 | |
| ckim-gatk | INDEL | * | map_l125_m1_e0 | * | 96.6080 | 98.5287 | 94.7608 | 90.7066 | 2076 | 31 | 2080 | 115 | 11 | 9.5652 | |
| ckim-gatk | INDEL | * | map_l125_m2_e0 | * | 96.6334 | 98.5428 | 94.7967 | 91.3207 | 2164 | 32 | 2168 | 119 | 11 | 9.2437 | |
| ckim-gatk | INDEL | * | map_l125_m2_e1 | * | 96.6536 | 98.5169 | 94.8596 | 91.3812 | 2192 | 33 | 2196 | 119 | 11 | 9.2437 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4466 | 99.9145 | 98.9831 | 63.0094 | 1168 | 1 | 1168 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.9827 | 89.0533 | 99.4898 | 29.9773 | 2107 | 259 | 2145 | 11 | 11 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7388 | 98.0035 | 99.4851 | 62.3094 | 1669 | 34 | 2705 | 14 | 11 | 78.5714 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1021 | 88.9925 | 97.6096 | 61.2654 | 477 | 59 | 490 | 12 | 11 | 91.6667 | |
| cchapple-custom | SNP | ti | segdup | homalt | 99.8600 | 99.8668 | 99.8533 | 87.0523 | 7495 | 10 | 7487 | 11 | 11 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.9299 | 98.8905 | 98.9693 | 81.5684 | 4100 | 46 | 4129 | 43 | 11 | 25.5814 | |
| ciseli-custom | INDEL | * | map_l250_m2_e0 | homalt | 59.5745 | 48.6957 | 76.7123 | 96.9159 | 56 | 59 | 56 | 17 | 11 | 64.7059 | |
| ciseli-custom | INDEL | * | map_l250_m2_e1 | homalt | 60.0000 | 49.1379 | 77.0270 | 96.9384 | 57 | 59 | 57 | 17 | 11 | 64.7059 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.2804 | 98.3316 | 98.2292 | 73.6842 | 943 | 16 | 943 | 17 | 11 | 64.7059 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | het | 99.7370 | 99.6292 | 99.8451 | 55.8027 | 20688 | 77 | 20632 | 32 | 11 | 34.3750 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 94.5312 | 99.1803 | 90.2985 | 86.3821 | 121 | 1 | 121 | 13 | 11 | 84.6154 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6667 | 99.0244 | 94.4186 | 90.8276 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 90.8276 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7238 | 91.2679 | 98.4516 | 67.1749 | 763 | 73 | 763 | 12 | 11 | 91.6667 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.5300 | 100.0000 | 93.2927 | 78.6736 | 153 | 0 | 153 | 11 | 11 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8416 | 99.9455 | 56.0535 | 20167 | 32 | 20178 | 11 | 11 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2924 | 99.2063 | 99.3785 | 88.6959 | 1750 | 14 | 1759 | 11 | 11 | 100.0000 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.7110 | 91.4414 | 96.0961 | 45.1400 | 203 | 19 | 320 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | * | map_l100_m2_e1 | homalt | 98.1532 | 97.5020 | 98.8133 | 82.2920 | 1249 | 32 | 1249 | 15 | 11 | 73.3333 | |
| cchapple-custom | INDEL | * | map_l125_m0_e0 | * | 94.9271 | 95.9184 | 93.9560 | 89.0203 | 846 | 36 | 855 | 55 | 11 | 20.0000 | |
| cchapple-custom | INDEL | * | map_l150_m1_e0 | het | 93.9997 | 95.9064 | 92.1674 | 89.8264 | 820 | 35 | 859 | 73 | 11 | 15.0685 | |
| cchapple-custom | INDEL | C6_15 | * | * | 95.9554 | 100.0000 | 92.2252 | 93.7957 | 7 | 0 | 344 | 29 | 11 | 37.9310 | |
| cchapple-custom | INDEL | C6_15 | HG002complexvar | * | 96.6006 | 100.0000 | 93.4247 | 83.0940 | 4 | 0 | 341 | 24 | 11 | 45.8333 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.4351 | 93.0348 | 93.8389 | 85.0989 | 187 | 14 | 198 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8767 | 99.8821 | 99.8712 | 51.6311 | 10166 | 12 | 10084 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m2_e1 | * | 91.9654 | 90.5455 | 93.4307 | 84.2075 | 249 | 26 | 256 | 18 | 11 | 61.1111 | |
| cchapple-custom | INDEL | I16_PLUS | HG002complexvar | homalt | 98.0066 | 100.0000 | 96.0912 | 61.8634 | 309 | 0 | 295 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6801 | 99.7532 | 99.6071 | 56.0538 | 27890 | 69 | 27889 | 110 | 11 | 10.0000 | |
| ckim-gatk | SNP | ti | map_siren | homalt | 91.8305 | 84.9219 | 99.9627 | 53.3585 | 32199 | 5717 | 32193 | 12 | 11 | 91.6667 | |