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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65401-65450 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I1_5 | map_l150_m1_e0 | het | 51.0679 | 42.8094 | 63.2743 | 93.1411 | 128 | 171 | 143 | 83 | 7 | 8.4337 | |
| anovak-vg | INDEL | I1_5 | map_l250_m0_e0 | homalt | 66.9856 | 77.7778 | 58.8235 | 97.3725 | 7 | 2 | 10 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | func_cds | homalt | 75.6757 | 93.3333 | 63.6364 | 35.2941 | 14 | 1 | 14 | 8 | 7 | 87.5000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 63.1476 | 62.9630 | 63.3333 | 96.0159 | 17 | 10 | 19 | 11 | 7 | 63.6364 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 83.0165 | 87.8049 | 78.7234 | 89.4144 | 36 | 5 | 37 | 10 | 7 | 70.0000 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | homalt | 82.5658 | 70.7831 | 99.0546 | 79.9368 | 940 | 388 | 943 | 9 | 7 | 77.7778 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8006 | 97.5318 | 98.0707 | 78.8291 | 1225 | 31 | 1220 | 24 | 7 | 29.1667 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | * | 96.6569 | 96.0389 | 97.2830 | 90.5512 | 1285 | 53 | 1289 | 36 | 7 | 19.4444 | |
| astatham-gatk | INDEL | * | map_l150_m2_e0 | * | 96.6049 | 95.8807 | 97.3400 | 91.1929 | 1350 | 58 | 1354 | 37 | 7 | 18.9189 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8131 | 99.6954 | 99.9311 | 54.3062 | 10147 | 31 | 10148 | 7 | 7 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 92.8980 | 89.5022 | 96.5618 | 87.1490 | 1654 | 194 | 1657 | 59 | 7 | 11.8644 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 93.0444 | 89.7128 | 96.6330 | 87.5446 | 1718 | 197 | 1722 | 60 | 7 | 11.6667 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 93.0516 | 89.7370 | 96.6205 | 87.5894 | 1740 | 199 | 1744 | 61 | 7 | 11.4754 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.3450 | 94.8485 | 95.8466 | 76.3952 | 313 | 17 | 300 | 13 | 7 | 53.8462 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | * | 93.2137 | 88.1864 | 98.8489 | 83.6431 | 2650 | 355 | 2662 | 31 | 7 | 22.5806 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.5411 | 97.9111 | 97.1738 | 70.8692 | 2953 | 63 | 2957 | 86 | 7 | 8.1395 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7738 | 97.6852 | 97.8626 | 87.3723 | 1266 | 30 | 1282 | 28 | 7 | 25.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1239 | 97.7673 | 98.4831 | 88.4750 | 832 | 19 | 844 | 13 | 7 | 53.8462 | |
| ckim-gatk | INDEL | I16_PLUS | HG002complexvar | homalt | 98.8800 | 100.0000 | 97.7848 | 70.4673 | 309 | 0 | 309 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 85.1501 | 95.7447 | 76.6667 | 93.8017 | 45 | 2 | 23 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.7925 | 100.0000 | 76.6667 | 88.7218 | 23 | 0 | 23 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.5736 | 100.0000 | 89.7059 | 91.4033 | 61 | 0 | 61 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.2012 | 96.5257 | 97.8862 | 78.6532 | 639 | 23 | 602 | 13 | 7 | 53.8462 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.9933 | 95.8333 | 96.1538 | 80.5097 | 276 | 12 | 250 | 10 | 7 | 70.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3173 | 99.3243 | 99.3103 | 72.7614 | 1323 | 9 | 1296 | 9 | 7 | 77.7778 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7942 | 99.6237 | 99.9652 | 56.3615 | 20123 | 76 | 20123 | 7 | 7 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | homalt | 83.6574 | 71.9327 | 99.9485 | 66.2938 | 19424 | 7579 | 19424 | 10 | 7 | 70.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | homalt | 83.9525 | 72.3722 | 99.9448 | 68.4557 | 19919 | 7604 | 19919 | 11 | 7 | 63.6364 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | homalt | 84.0675 | 72.5428 | 99.9455 | 68.3772 | 20164 | 7632 | 20164 | 11 | 7 | 63.6364 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9370 | 98.8636 | 99.0104 | 68.9077 | 2001 | 23 | 2001 | 20 | 7 | 35.0000 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5862 | 99.7647 | 99.4083 | 59.0715 | 17809 | 42 | 17808 | 106 | 7 | 6.6038 | |
| ckim-gatk | SNP | ti | map_l100_m1_e0 | homalt | 84.4316 | 73.0902 | 99.9391 | 65.0795 | 13127 | 4833 | 13127 | 8 | 7 | 87.5000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e0 | homalt | 84.7018 | 73.4994 | 99.9332 | 67.2925 | 13457 | 4852 | 13457 | 9 | 7 | 77.7778 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | homalt | 84.8134 | 73.6671 | 99.9340 | 67.2110 | 13624 | 4870 | 13624 | 9 | 7 | 77.7778 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1238 | 99.1238 | 99.1238 | 89.4268 | 905 | 8 | 905 | 8 | 7 | 87.5000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2626 | 99.2439 | 99.2814 | 84.2685 | 2625 | 20 | 2625 | 19 | 7 | 36.8421 | |
| ckim-gatk | SNP | tv | map_l150_m0_e0 | * | 71.0339 | 56.1092 | 96.7755 | 93.2891 | 2342 | 1832 | 2341 | 78 | 7 | 8.9744 | |
| ckim-gatk | SNP | tv | map_l150_m0_e0 | het | 74.0126 | 60.3588 | 95.6497 | 94.2325 | 1716 | 1127 | 1715 | 78 | 7 | 8.9744 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 67.2694 | 51.8106 | 95.8763 | 44.7293 | 186 | 173 | 186 | 8 | 7 | 87.5000 | |
| ckim-isaac | INDEL | * | map_l100_m0_e0 | * | 78.2134 | 65.0032 | 98.1625 | 86.3822 | 1016 | 547 | 1015 | 19 | 7 | 36.8421 | |
| ckim-isaac | INDEL | * | map_siren | homalt | 82.0615 | 69.8682 | 99.4105 | 72.7551 | 1855 | 800 | 1855 | 11 | 7 | 63.6364 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 25.3240 | 74.5098 | 15.2542 | 84.3039 | 76 | 26 | 81 | 450 | 7 | 1.5556 | |
| ciseli-custom | SNP | * | map_siren | hetalt | 77.2414 | 69.1358 | 87.5000 | 66.4921 | 56 | 25 | 56 | 8 | 7 | 87.5000 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 51.3139 | 90.2439 | 35.8491 | 90.7906 | 37 | 4 | 38 | 68 | 7 | 10.2941 | |
| ciseli-custom | SNP | tv | map_l250_m0_e0 | het | 59.1512 | 52.9720 | 66.9623 | 96.1499 | 303 | 269 | 302 | 149 | 7 | 4.6980 | |
| ciseli-custom | SNP | tv | map_siren | hetalt | 77.2414 | 69.1358 | 87.5000 | 66.4921 | 56 | 25 | 56 | 8 | 7 | 87.5000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.9211 | 97.8503 | 97.9920 | 79.1387 | 1229 | 27 | 1220 | 25 | 7 | 28.0000 | |