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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23551-23600 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D1_5 | map_l125_m1_e0 | * | 97.0194 | 97.3346 | 96.7063 | 87.6399 | 1059 | 29 | 1057 | 36 | 5 | 13.8889 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e0 | * | 97.0354 | 97.4628 | 96.6116 | 88.3585 | 1114 | 29 | 1112 | 39 | 5 | 12.8205 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e1 | * | 97.0711 | 97.4935 | 96.6524 | 88.4160 | 1128 | 29 | 1126 | 39 | 5 | 12.8205 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8066 | 99.2505 | 98.3666 | 68.3281 | 3840 | 29 | 3794 | 63 | 61 | 96.8254 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m1_e0 | * | 96.8476 | 96.5060 | 97.1917 | 84.9670 | 801 | 29 | 796 | 23 | 6 | 26.0870 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6015 | 99.7463 | 97.4826 | 44.5639 | 11404 | 29 | 11462 | 296 | 9 | 3.0405 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8341 | 99.7463 | 97.9383 | 44.8790 | 11404 | 29 | 11401 | 240 | 3 | 1.2500 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4894 | 99.5224 | 99.4565 | 52.2754 | 6043 | 29 | 6039 | 33 | 33 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.0513 | 91.9890 | 94.1385 | 58.2808 | 333 | 29 | 1060 | 66 | 64 | 96.9697 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.3322 | 95.2381 | 97.4518 | 62.1184 | 580 | 29 | 1415 | 37 | 32 | 86.4865 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m1_e0 | het | 96.0240 | 97.6013 | 94.4969 | 82.5992 | 1180 | 29 | 1202 | 70 | 7 | 10.0000 | |
| anovak-vg | INDEL | * | map_l250_m1_e0 | homalt | 71.5666 | 73.3945 | 69.8276 | 95.2322 | 80 | 29 | 81 | 35 | 32 | 91.4286 | |
| anovak-vg | INDEL | * | map_l250_m2_e0 | homalt | 72.3983 | 74.7826 | 70.1613 | 95.5950 | 86 | 29 | 87 | 37 | 34 | 91.8919 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | homalt | 72.6272 | 75.0000 | 70.4000 | 95.6911 | 87 | 29 | 88 | 37 | 34 | 91.8919 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 57.5634 | 52.4590 | 63.7681 | 43.4426 | 32 | 29 | 44 | 25 | 20 | 80.0000 | |
| anovak-vg | INDEL | D16_PLUS | map_siren | hetalt | 0.0000 | 6.4516 | 0.0000 | 0.0000 | 2 | 29 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 21.6216 | 0.0000 | 0.0000 | 8 | 29 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | map_siren | homalt | 83.4332 | 77.6923 | 90.0901 | 82.2967 | 101 | 29 | 100 | 11 | 10 | 90.9091 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 28.0467 | 29.2683 | 26.9231 | 53.5714 | 12 | 29 | 14 | 38 | 20 | 52.6316 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 30.6087 | 21.6216 | 52.3810 | 47.5000 | 8 | 29 | 11 | 10 | 3 | 30.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8858 | 98.0576 | 99.7281 | 33.7984 | 1464 | 29 | 1467 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | D6_15 | HG002compoundhet | het | 89.0353 | 96.6121 | 82.5605 | 68.4177 | 827 | 29 | 819 | 173 | 168 | 97.1098 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.9401 | 95.3968 | 98.5342 | 66.3746 | 601 | 29 | 605 | 9 | 6 | 66.6667 | |
| asubramanian-gatk | SNP | ti | func_cds | homalt | 99.7244 | 99.4502 | 100.0000 | 20.1522 | 5246 | 29 | 5246 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_siren | hetalt | 65.8824 | 49.1228 | 100.0000 | 83.6257 | 28 | 29 | 28 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4476 | 99.1594 | 99.7375 | 38.8443 | 3421 | 29 | 3420 | 9 | 2 | 22.2222 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8660 | 99.8235 | 99.9086 | 58.4519 | 16400 | 29 | 16399 | 15 | 4 | 26.6667 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | * | 98.3668 | 98.6966 | 98.0392 | 88.5574 | 2196 | 29 | 2200 | 44 | 9 | 20.4545 | |
| anovak-vg | INDEL | I16_PLUS | segdup | * | 48.3031 | 38.2979 | 65.3846 | 88.6463 | 18 | 29 | 17 | 9 | 5 | 55.5556 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 0.0000 | 34.0909 | 0.0000 | 0.0000 | 15 | 29 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l100_m2_e0 | hetalt | 0.0000 | 34.0909 | 0.0000 | 0.0000 | 15 | 29 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l100_m1_e0 | hetalt | 0.0000 | 29.2683 | 0.0000 | 0.0000 | 12 | 29 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l100_m2_e0 | hetalt | 0.0000 | 30.9524 | 0.0000 | 0.0000 | 13 | 29 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l100_m1_e0 | hetalt | 0.0000 | 29.2683 | 0.0000 | 0.0000 | 12 | 29 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l100_m2_e0 | hetalt | 0.0000 | 30.9524 | 0.0000 | 0.0000 | 13 | 29 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | * | segdup | * | 98.7115 | 98.8654 | 98.5581 | 94.6872 | 2527 | 29 | 2529 | 37 | 10 | 27.0270 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.8851 | 96.3010 | 99.5221 | 33.7816 | 755 | 29 | 833 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.5536 | 96.0864 | 97.0255 | 75.2541 | 712 | 29 | 685 | 21 | 18 | 85.7143 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 96.9783 | 96.6396 | 97.3193 | 86.2786 | 834 | 29 | 835 | 23 | 4 | 17.3913 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 96.6463 | 96.1992 | 97.0976 | 90.1019 | 734 | 29 | 736 | 22 | 4 | 18.1818 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2837 | 95.0257 | 99.6516 | 66.3934 | 554 | 29 | 572 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 78.3260 | 65.0602 | 98.3871 | 30.3371 | 54 | 29 | 61 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2753 | 99.1071 | 99.4439 | 65.2571 | 3219 | 29 | 3219 | 18 | 4 | 22.2222 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7144 | 99.8963 | 99.5331 | 54.5778 | 27930 | 29 | 27929 | 131 | 10 | 7.6336 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5662 | 99.2623 | 99.8720 | 56.6274 | 3902 | 29 | 3902 | 5 | 0 | 0.0000 | |
| astatham-gatk | SNP | ti | func_cds | * | 99.8730 | 99.7897 | 99.9564 | 22.5679 | 13758 | 29 | 13756 | 6 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m1_e0 | * | 94.3636 | 90.4918 | 98.5816 | 93.0781 | 276 | 29 | 278 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m1_e0 | het | 91.2276 | 84.7368 | 98.7952 | 90.9635 | 161 | 29 | 164 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | * | 94.8253 | 91.2387 | 98.7055 | 93.5812 | 302 | 29 | 305 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | het | 92.1221 | 86.1905 | 98.9305 | 91.5385 | 181 | 29 | 185 | 2 | 0 | 0.0000 | |