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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62551-62600 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | tech_badpromoters | het | 84.5070 | 77.9221 | 92.3077 | 45.8333 | 60 | 17 | 60 | 5 | 5 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 73.8636 | 71.4286 | 76.4706 | 89.6024 | 25 | 10 | 26 | 8 | 5 | 62.5000 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | homalt | 84.7951 | 73.9266 | 99.4103 | 87.1481 | 1188 | 419 | 1180 | 7 | 5 | 71.4286 | |
| anovak-vg | SNP | ti | map_l250_m2_e0 | homalt | 85.1522 | 74.4425 | 99.4611 | 88.0122 | 1302 | 447 | 1292 | 7 | 5 | 71.4286 | |
| anovak-vg | SNP | ti | map_l250_m2_e1 | homalt | 85.1502 | 74.4357 | 99.4681 | 88.0298 | 1319 | 453 | 1309 | 7 | 5 | 71.4286 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 59.2384 | 57.6923 | 60.8696 | 95.4092 | 15 | 11 | 14 | 9 | 5 | 55.5556 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 55.7276 | 58.8235 | 52.9412 | 95.5959 | 10 | 7 | 9 | 8 | 5 | 62.5000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7617 | 99.8940 | 99.6298 | 72.6774 | 1884 | 2 | 1884 | 7 | 5 | 71.4286 | |
| astatham-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.7292 | 99.2141 | 98.2490 | 85.0971 | 505 | 4 | 505 | 9 | 5 | 55.5556 | |
| astatham-gatk | INDEL | * | map_l125_m1_e0 | het | 95.1476 | 93.1835 | 97.1963 | 89.1710 | 1244 | 91 | 1248 | 36 | 5 | 13.8889 | |
| astatham-gatk | INDEL | * | map_l125_m2_e0 | het | 94.9267 | 92.7390 | 97.2201 | 89.8845 | 1290 | 101 | 1294 | 37 | 5 | 13.5135 | |
| astatham-gatk | INDEL | * | map_l125_m2_e1 | het | 94.9130 | 92.6847 | 97.2511 | 89.9694 | 1305 | 103 | 1309 | 37 | 5 | 13.5135 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9231 | 96.3983 | 99.4970 | 32.0574 | 910 | 34 | 989 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3534 | 99.7835 | 98.9270 | 63.9598 | 461 | 1 | 461 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8792 | 99.4987 | 98.2673 | 65.6463 | 397 | 2 | 397 | 7 | 5 | 71.4286 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.8861 | 95.1429 | 98.6945 | 35.5219 | 333 | 17 | 378 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5144 | 99.6757 | 99.3536 | 78.0162 | 1537 | 5 | 1537 | 10 | 5 | 50.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.7749 | 88.6135 | 99.5748 | 31.3084 | 1144 | 147 | 1171 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9182 | 99.9727 | 99.8638 | 51.1578 | 3665 | 1 | 3665 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 97.0895 | 96.5074 | 97.6787 | 87.4226 | 1050 | 38 | 1052 | 25 | 5 | 20.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 96.9583 | 96.1505 | 97.7798 | 88.0289 | 1099 | 44 | 1101 | 25 | 5 | 20.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.9505 | 96.1106 | 97.8051 | 88.0870 | 1112 | 45 | 1114 | 25 | 5 | 20.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 96.5155 | 96.0154 | 97.0207 | 90.1102 | 747 | 31 | 749 | 23 | 5 | 21.7391 | |
| 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_lt51bp_gt95identity_merged | het | 97.4245 | 96.5596 | 98.3051 | 85.6945 | 421 | 15 | 406 | 7 | 5 | 71.4286 | |
| 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 | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6707 | 96.5079 | 98.8618 | 65.9091 | 608 | 22 | 608 | 7 | 5 | 71.4286 | |
| 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 | homalt | 99.5587 | 100.0000 | 99.1213 | 72.7881 | 564 | 0 | 564 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | map_siren | * | 97.3853 | 95.4077 | 99.4467 | 81.4805 | 2867 | 138 | 2876 | 16 | 5 | 31.2500 | |
| 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 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9984 | 97.5741 | 98.4263 | 73.4018 | 724 | 18 | 688 | 11 | 5 | 45.4545 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1602 | 97.5584 | 98.7696 | 74.4425 | 919 | 23 | 883 | 11 | 5 | 45.4545 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e0 | * | 40.8545 | 25.6874 | 99.7538 | 94.2642 | 5269 | 15243 | 5267 | 13 | 5 | 38.4615 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e0 | het | 44.0116 | 28.2431 | 99.6437 | 94.9202 | 3638 | 9243 | 3636 | 13 | 5 | 38.4615 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | * | 40.9816 | 25.7878 | 99.7572 | 94.2645 | 5344 | 15379 | 5342 | 13 | 5 | 38.4615 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | het | 44.1440 | 28.3519 | 99.6487 | 94.9230 | 3690 | 9325 | 3688 | 13 | 5 | 38.4615 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3827 | 98.8452 | 99.9260 | 60.8128 | 10785 | 126 | 10801 | 8 | 5 | 62.5000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m0_e0 | homalt | 98.5366 | 99.2141 | 97.8682 | 84.8680 | 505 | 4 | 505 | 11 | 5 | 45.4545 | |
| bgallagher-sentieon | INDEL | * | map_l125_m1_e0 | het | 97.9174 | 98.4270 | 97.4132 | 88.3493 | 1314 | 21 | 1318 | 35 | 5 | 14.2857 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e0 | het | 97.9642 | 98.4184 | 97.5142 | 89.0844 | 1369 | 22 | 1373 | 35 | 5 | 14.2857 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | het | 97.9886 | 98.4375 | 97.5439 | 89.1635 | 1386 | 22 | 1390 | 35 | 5 | 14.2857 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002complexvar | homalt | 98.6254 | 99.3080 | 97.9522 | 76.0621 | 287 | 2 | 287 | 6 | 5 | 83.3333 | |
| 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 | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1735 | 98.8506 | 97.5057 | 69.0309 | 430 | 5 | 430 | 11 | 5 | 45.4545 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5466 | 99.6757 | 99.4179 | 77.8922 | 1537 | 5 | 1537 | 9 | 5 | 55.5556 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m1_e0 | * | 98.5857 | 99.1728 | 98.0054 | 86.8862 | 1079 | 9 | 1081 | 22 | 5 | 22.7273 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e0 | * | 98.6532 | 99.2126 | 98.1002 | 87.4743 | 1134 | 9 | 1136 | 22 | 5 | 22.7273 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6694 | 99.2221 | 98.1229 | 87.5306 | 1148 | 9 | 1150 | 22 | 5 | 22.7273 | |