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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56301-56350 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7147 | 100.0000 | 97.4619 | 47.3262 | 192 | 0 | 192 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 96.1538 | 97.0874 | 95.2381 | 90.1961 | 100 | 3 | 100 | 5 | 1 | 20.0000 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m0_e0 | het | 95.1613 | 98.3333 | 92.1875 | 91.2449 | 59 | 1 | 59 | 5 | 1 | 20.0000 | |
| astatham-gatk | INDEL | I16_PLUS | * | hetalt | 96.0726 | 92.6597 | 99.7466 | 58.1637 | 1944 | 154 | 1968 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.8025 | 94.1748 | 97.4874 | 88.3010 | 194 | 12 | 194 | 5 | 2 | 40.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.7959 | 100.0000 | 81.4815 | 87.6147 | 22 | 0 | 22 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.4274 | 94.3750 | 96.5035 | 89.8148 | 151 | 9 | 138 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_siren | het | 93.0693 | 95.9184 | 90.3846 | 91.9255 | 47 | 2 | 47 | 5 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5149 | 99.5000 | 97.5490 | 60.7692 | 199 | 1 | 199 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2975 | 98.9729 | 99.6243 | 77.9307 | 1349 | 14 | 1326 | 5 | 3 | 60.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5587 | 100.0000 | 99.1213 | 72.7881 | 564 | 0 | 564 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6042 | 99.3980 | 99.8112 | 69.7820 | 2642 | 16 | 2643 | 5 | 3 | 60.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.5197 | 100.0000 | 99.0440 | 80.6440 | 518 | 0 | 518 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.5314 | 100.0000 | 99.0672 | 81.9892 | 531 | 0 | 531 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 82.0606 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 95.3587 | 92.6421 | 98.2394 | 90.9091 | 277 | 22 | 279 | 5 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 95.1641 | 92.2330 | 98.2877 | 91.7561 | 285 | 24 | 287 | 5 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 95.1193 | 92.1136 | 98.3278 | 91.8149 | 292 | 25 | 294 | 5 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I6_15 | * | hetalt | 96.4480 | 93.1938 | 99.9376 | 38.5683 | 7969 | 582 | 8010 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | het | 99.2512 | 98.7261 | 99.7819 | 59.6303 | 2325 | 30 | 2288 | 5 | 4 | 80.0000 | |
| 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 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.7690 | 95.3020 | 96.2406 | 77.7219 | 142 | 7 | 128 | 5 | 3 | 60.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6791 | 97.8831 | 99.4882 | 71.3069 | 971 | 21 | 972 | 5 | 2 | 40.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8363 | 99.9065 | 99.7662 | 76.2965 | 2136 | 2 | 2134 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7400 | 99.6173 | 99.8629 | 52.8317 | 3644 | 14 | 3643 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9825 | 99.0991 | 98.8662 | 75.3356 | 440 | 4 | 436 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.5924 | 95.7627 | 99.4934 | 31.8370 | 904 | 40 | 982 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.5857 | 94.5714 | 98.6877 | 35.6419 | 331 | 19 | 376 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m0_e0 | het | 85.1182 | 94.7368 | 77.2727 | 96.5300 | 18 | 1 | 17 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 82.3529 | 93.3333 | 73.6842 | 95.2141 | 14 | 1 | 14 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m2_e0 | homalt | 83.3333 | 93.7500 | 75.0000 | 95.8071 | 15 | 1 | 15 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 83.3333 | 93.7500 | 75.0000 | 95.8420 | 15 | 1 | 15 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_siren | homalt | 91.6667 | 97.0588 | 86.8421 | 94.0157 | 33 | 1 | 33 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.7196 | 86.7545 | 99.5656 | 30.9538 | 1120 | 171 | 1146 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.7416 | 96.3077 | 99.2188 | 22.9844 | 626 | 24 | 635 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6479 | 99.8824 | 99.4145 | 51.1721 | 849 | 1 | 849 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m0_e0 | het | 95.1613 | 98.3333 | 92.1875 | 91.1234 | 59 | 1 | 59 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | segdup | homalt | 95.2381 | 100.0000 | 90.9091 | 92.3505 | 50 | 0 | 50 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.5446 | 93.6893 | 97.4747 | 88.2562 | 193 | 13 | 193 | 5 | 2 | 40.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1978 | 94.7154 | 97.7273 | 88.4393 | 233 | 13 | 215 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | map_siren | het | 94.1176 | 97.9592 | 90.5660 | 91.6667 | 48 | 1 | 48 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3716 | 99.1196 | 99.6249 | 77.6829 | 1351 | 12 | 1328 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.5197 | 100.0000 | 99.0440 | 80.3679 | 518 | 0 | 518 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.5314 | 100.0000 | 99.0672 | 81.7749 | 531 | 0 | 531 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 81.8454 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m0_e0 | het | 97.4026 | 97.3958 | 97.4093 | 89.8634 | 187 | 5 | 188 | 5 | 0 | 0.0000 | |
| 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 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.4289 | 94.6309 | 96.2406 | 77.3424 | 141 | 8 | 128 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.8558 | 100.0000 | 97.7376 | 68.0174 | 216 | 0 | 216 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_siren | homalt | 96.7391 | 98.8889 | 94.6809 | 85.2201 | 89 | 1 | 89 | 5 | 4 | 80.0000 | |